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Genome: Caenorhabditis Elegans | mRNA | miRBase 18 (Nov. 2011), ENSEMBL 65 (Dec. 2011) and RNA22v1.0
Description: List of transcripts that are targeted by all of the below miRNA identifiers simultaneously
miRNA's: cel-miR-53-3p (MIMAT0020312)
Filtering By: Base pair min value: 12 | Folding energy max value (Kcal/mol): -21 | Min miRNA targets: 1


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Gene IDTranscript IDCommon Gene Name# of miRNA targets
for specified miRNAs
ChromosomeStrand DirectionTranscript Link to view miRNA target predictionsGene LinkDescription
AC8.10AC8.10AC8.10123 XReverseView as cDNA map |
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Ensembl
AC8.3AC8.3AC8.3123 XReverseView as cDNA map |
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Ensembl
B0198.1B0198.1tsp-20323 XReverseView as cDNA map |
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B0198.3B0198.3aB0198.3123 XReverseView as cDNA map |
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B0302.1B0302.1a.1kin-25123 XForwardView as cDNA map |
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kin-25 encodes a nonreceptor tyrosine kinase that is a member of the Ack subfamily of cytoplasmic tyrosine kinases. [Source: WormBase]
B0302.1B0302.1a.2kin-25123 XForwardView as cDNA map |
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kin-25 encodes a nonreceptor tyrosine kinase that is a member of the Ack subfamily of cytoplasmic tyrosine kinases. [Source: WormBase]
B0302.1B0302.1bkin-25123 XForwardView as cDNA map |
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kin-25 encodes a nonreceptor tyrosine kinase that is a member of the Ack subfamily of cytoplasmic tyrosine kinases. [Source: WormBase]
B0302.5B0302.5B0302.5123 XReverseView as cDNA map |
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B0310.6B0310.6B0310.6123 XReverseView as cDNA map |
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B0344.2B0344.2wrt-9123 XForwardView as cDNA map |
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wrt-9 encodes a hedgehog-like protein, with an N-terminal signal sequence, a Wart domain, and a C-terminal region of proline-rich, low-complexity sequence. the Wart domain is predicted to form a cysteine-crosslinked protein involved in intercellular signalling, and it has subtle similarity to the N-terminal Hedge domain of HEDGEHOG proteins. WRT-9 has no obvious function in RNAi assays. [Source: WormBase]
B0395.1B0395.1nhx-1123 XForwardView as cDNA map |
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nhx-1 encodes a sodium/proton exchanger expressed intracellularly within hypodermal and muscle cells. NHX-1 is required for embryonic viability, and is thought to prevent intracellular acidification by catalysing the electroneutral exchange of vesicular sodium for an intracellular proton. [Source: WormBase]
B0403.5B0403.5B0403.5123 XForwardView as cDNA map |
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B0410.2B0410.2avang-1123 XForwardView as cDNA map |
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vang-1 encodes an ortholog of Drosophila VAN GOGH (also known as STRABISMUS). VANG-1 enables Wnt-directed planar cell polarity. VANG-1 is required for the fully asymmetrical division of B.a versus B.p cells, though this requirement is quantitatively weak. [Source: WormBase]
B0410.2B0410.2bvang-1123 XForwardView as cDNA map |
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vang-1 encodes an ortholog of Drosophila VAN GOGH (also known as STRABISMUS). VANG-1 enables Wnt-directed planar cell polarity. VANG-1 is required for the fully asymmetrical division of B.a versus B.p cells, though this requirement is quantitatively weak. [Source: WormBase]
B0416.1B0416.1B0416.1223 XForwardView as cDNA map |
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B0416.2B0416.2B0416.2223 XForwardView as cDNA map |
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B0563.2B0563.2tsp-11123 XForwardView as cDNA map |
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B0563.4B0563.4.1tmbi-4123 XForwardView as cDNA map |
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B0563.4B0563.4.2tmbi-4123 XForwardView as cDNA map |
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B0563.6B0563.6aB0563.6123 XForwardView as cDNA map |
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B0563.6B0563.6b.1B0563.6123 XForwardView as cDNA map |
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B0563.6B0563.6b.2B0563.6123 XForwardView as cDNA map |
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B0563.6B0563.6cB0563.6123 XForwardView as cDNA map |
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C01C10.3C01C10.3.1acl-12123 XReverseView as cDNA map |
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C01C10.3C01C10.3.2acl-12123 XReverseView as cDNA map |
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C02B4.1C02B4.1adt-1223 XForwardView as cDNA map |
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The adt-1 gene encodes a metalloproteinase with disintegrin-like and metalloproteinase with thrombospondin type I motifs (ADAMTS) that is required for male tail morphogenesis. [Source: WormBase]
C02C6.1C02C6.1adyn-1123 XForwardView as cDNA map |
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dyn-1 encodes the C. elegans ortholog of the dynamin GTPase. dyn-1 activity is required for endocytosis, synaptic vesicle recycling, cytokinesis, and the CED-1 pathway that regulates engulfment and degradation of apoptotic cells. mutations in dyn-1 affect locomotion, egg-laying, defecation, and embryonic development, indicating that dyn-1's endocytic function is required for a number of diverse processes. dyn-1 reporter fusion constructs are expressed in motor neurons, intestinal cells, and pharyngeal muscle. [Source: WormBase]
C02C6.1C02C6.1bdyn-1123 XForwardView as cDNA map |
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dyn-1 encodes the C. elegans ortholog of the dynamin GTPase. dyn-1 activity is required for endocytosis, synaptic vesicle recycling, cytokinesis, and the CED-1 pathway that regulates engulfment and degradation of apoptotic cells. mutations in dyn-1 affect locomotion, egg-laying, defecation, and embryonic development, indicating that dyn-1's endocytic function is required for a number of diverse processes. dyn-1 reporter fusion constructs are expressed in motor neurons, intestinal cells, and pharyngeal muscle. [Source: WormBase]
C02F12.1C02F12.1btsp-17123 XForwardView as cDNA map |
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C02F12.5C02F12.5C02F12.5123 XReverseView as cDNA map |
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C02F12.5 encodes a putatively secreted protein with a Kunitz/bovine pancreatic trypsin inhibitor domain. C02F12.5 has no obvious function in mass RNAi assays. [Source: WormBase]
C02F12.7C02F12.7tag-278123 XReverseView as cDNA map |
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C02H7.1C02H7.1dyf-11123 XForwardView as cDNA map |
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dyf-11 encodes a conserved protein orthologous to the human microtubule-binding protein MIP-T3 and that contains a lysine-rich region and a C-terminal coiled-coil domain present in a number of intraflagellar transport (IFT) complex B proteins. DYF-11 activity is required continuously in sensory neurons for formation of medial and distal ciliary segments and thus, for normal sensory cilium morphology and function and chemotaxis. a dyf-11::gfp promoter fusion is expressed in all ciliated sensory neurons as well as in the AQR, PQR, ADE, and PDR neurons. a DYF-11::GFP protein fusion is detected throughout the cilium and appears to localize to IFT-B particles in a manner consistent with an early role in IFT-B particle assembly. dyf-11 expression in ciliated neurons is dependent upon the presence of the DAF-19 RFX transcription factor. [Source: WormBase]
C02H7.2C02H7.2npr-19123 XReverseView as cDNA map |
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C02H7.3C02H7.3aaex-3123 XReverseView as cDNA map |
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aex-3 encodes a guanine nucleotide exchange factor for the rab-3 GTPase that is orthologous to human MAP kinase activating protein containing death domain (MADD, OMIM:603584). AEX-3 is required for intracellular vesicle trafficking as well as synaptic vesicle release and interacts with CAB-1 and RAB-3 to regulate separate pathways for neural activities such as defecation and male mating, respectively. AEX-3 is also required for egg laying and locomotion. AEX-3 is expressed in nearly all neurons. [Source: WormBase]
C03A3.2C03A3.2.1C03A3.2123 XForwardView as cDNA map |
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C03A3.2C03A3.2.2C03A3.2123 XForwardView as cDNA map |
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C03A3.3C03A3.3C03A3.3123 XReverseView as cDNA map |
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C03B1.12C03B1.12.1lmp-1223 XReverseView as cDNA map |
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lmp-1 encodes a protein with similarity to vertebrate lysosome-associated membrane proteins CD68, and appears to be the only protein in C. elegans that has a GYXX (phi) vertebrate lysosomal targeting sequence at its carboxy terminus. localized to the periphery of a large population of membrane bound organelles (granules) seen throughout the early embryos and restricted to the cells of the intestine during later stages. [Source: WormBase]
C03B1.12C03B1.12.2lmp-1123 XReverseView as cDNA map |
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lmp-1 encodes a protein with similarity to vertebrate lysosome-associated membrane proteins CD68, and appears to be the only protein in C. elegans that has a GYXX (phi) vertebrate lysosomal targeting sequence at its carboxy terminus. localized to the periphery of a large population of membrane bound organelles (granules) seen throughout the early embryos and restricted to the cells of the intestine during later stages. [Source: WormBase]
C03B1.1C03B1.1C03B1.1123 XForwardView as cDNA map |
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C03B1.4C03B1.4C03B1.4123 XForwardView as cDNA map |
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C03G5.1C03G5.1.1sdha-1123 XReverseView as cDNA map |
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sdha-1 is orthologous to the human gene SUCCINATE DEHYDROGENASE COMPLEX, SUBUNIT A, FLAVOPROTEIN (SDHA. OMIM:600857), which when mutated leads to complex II mitochondrial respiratory chain deficiency presenting as Leigh syndrome. [Source: WormBase]
C03G5.1C03G5.1.2sdha-1123 XReverseView as cDNA map |
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sdha-1 is orthologous to the human gene SUCCINATE DEHYDROGENASE COMPLEX, SUBUNIT A, FLAVOPROTEIN (SDHA. OMIM:600857), which when mutated leads to complex II mitochondrial respiratory chain deficiency presenting as Leigh syndrome. [Source: WormBase]
C03G5.8C03G5.8nspc-1123 XReverseView as cDNA map |
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C04A11.2C04A11.2C04A11.2123 XReverseView as cDNA map |
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C04A11.4C04A11.4adm-2123 XForwardView as cDNA map |
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adm-2 encodes a protein containing a snake venom disintegrin-domain and a metalloprotease-like domain (i.e., a protein of the ADAM family). like ADM-1, ADM-2 is homologous to a mammalian sperm glycoprotein (PH-30/fertilin) implicated in sperm-egg fusion, and ADM-2 might thus be a fusogenic protein mediating the merging of plasma membranes during development. [Source: WormBase]
C04B4.2C04B4.2C04B4.2123 XForwardView as cDNA map |
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C04F6.1C04F6.1vit-5223 XForwardView as cDNA map |
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vit-5 encodes a vitellogenin, a lipid-binding protein precursor related to vertebrate vitellogenins and mammalian ApoB-100, a core LDL particle constituent. by homology, VIT-5 is predicted to function as a lipid transport protein. loss of vit-5 activity via large-scale RNA-mediated interference (RNAi) screens indicates that VIT-5 is required for embryogenesis and normal rates of postembryonic growth. VIT-5 is a major yolk component and is expressed exclusively in the adult hermaphrodite intestine from which it is secreted into the pseudocoelomic space and taken up by oocytes. [Source: WormBase]
C04F6.3C04F6.3.1cht-1123 XReverseView as cDNA map |
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cht-1 encodes a chitinase orthologous to human chitinase-1 (OMIM:600031, mutations are associated with chitotriosidase deficiency). CHT-1 is predicted to function as an extracellular O-glycosyl hydrolase that hydrolyzes the glycosidic bond between two or more carbohydrates. in C. elegans, CHT-1 may play a role in embryogenesis, and may also be required for cuticle degradation during molting and degradation of chitin-containing pathogens as part of a host defense mechanism. [Source: WormBase]
C04F6.3C04F6.3.2cht-1123 XReverseView as cDNA map |
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cht-1 encodes a chitinase orthologous to human chitinase-1 (OMIM:600031, mutations are associated with chitotriosidase deficiency). CHT-1 is predicted to function as an extracellular O-glycosyl hydrolase that hydrolyzes the glycosidic bond between two or more carbohydrates. in C. elegans, CHT-1 may play a role in embryogenesis, and may also be required for cuticle degradation during molting and degradation of chitin-containing pathogens as part of a host defense mechanism. [Source: WormBase]
C05C9.1C05C9.1C05C9.1123 XForwardView as cDNA map |
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C05C9.2C05C9.2C05C9.2123 XForwardView as cDNA map |
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C05D9.3C05D9.3C05D9.3123 XForwardView as cDNA map |
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C05D9.7C05D9.7C05D9.7123 XReverseView as cDNA map |
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C05E11.1C05E11.1.1lnp-1123 XForwardView as cDNA map |
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lnp-1 encodes a highly conserved protein of unknown function, orthologous to human LUNAPARK/KIAA1715 (OMIM:610236), that is required for normally short body length, normal locomotion, fat content, acetylcholine neurotransmission, localization of RAB-3 and SNB-1, and sensitivity to aldicarb. LNP-1 is expressed in muscles, hypodermal cells, and neurons. within neurons, LNP-1 is localized to cell bodies, neuritic processes and commissures, and requiring UNC-104 for localization outside of cell bodies. LNP-1 is likely to act presynaptically. LNP-1 contains two N-terminal predicted transmembrane sequences, and an atypical zinc finger domain (C2HC2). [Source: WormBase]
C05E11.7C05E11.7C05E11.7123 XReverseView as cDNA map |
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C05G5.2C05G5.2C05G5.2223 XForwardView as cDNA map |
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C05G5.4C05G5.4.1C05G5.4123 XForwardView as cDNA map |
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C05G5.4C05G5.4.2C05G5.4123 XForwardView as cDNA map |
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C06E2.8C06E2.8ins-9123 XReverseView as cDNA map |
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ins-9 encodes an insulin-like peptide of the insulin superfamily of proteins (OMIM:176730, 147440). INS-9 is one of 38 insulin-like peptides in C. elegans and although INS-9 overexpression can result in low levels of embryonic and larval lethality, the precise role of INS-9 in C. elegans development is not yet clear. INS-9 is expressed exclusively in the amphid sensory neurons ASI and ASJ that regulate dauer arrest, but INS-9 overexpression does not enhance dauer arrest in a wild-type or daf-2 mutant background. [Source: WormBase]
C06G1.1C06G1.1aC06G1.1123 XForwardView as cDNA map |
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C06G1.1C06G1.1bC06G1.1123 XForwardView as cDNA map |
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C06G1.6C06G1.6C06G1.6123 XReverseView as cDNA map |
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C07A12.5C07A12.5aspr-3123 XForwardView as cDNA map |
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C07A12.7C07A12.7a.1C07A12.7223 XReverseView as cDNA map |
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C07A12.7C07A12.7a.2C07A12.7223 XReverseView as cDNA map |
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C07A12.7C07A12.7bC07A12.7223 XReverseView as cDNA map |
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C07A12.7C07A12.7c.1C07A12.7223 XReverseView as cDNA map |
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C07A12.7C07A12.7c.2C07A12.7223 XReverseView as cDNA map |
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C07A4.2C07A4.2C07A4.2123 XForwardView as cDNA map |
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C07B5.5C07B5.5nuc-1223 XForwardView as cDNA map |
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The nuc-1 gene encodes a DNase II homolog similar to mammalian and Drosophila DNaseII enzymes and is required for DNA degradation during apoptosis as well as for degradation of dietary DNA during normal feeding. during apoptosis, NUC-1 functions in apoptotic cells at an intermediate stage of DNA degradation, after the killing step, but prior to cell-corpse engulfment. [Source: WormBase]
C08A9.9C08A9.9.1C08A9.9223 XReverseView as cDNA map |
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C08A9.9C08A9.9.2C08A9.9123 XReverseView as cDNA map |
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C09B7.1C09B7.1aser-7123 XForwardView as cDNA map |
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ser-7 encodes an ortholog of mammalian 5-HT7 metabotropic serotonin receptors. SER-7 is required for stimulation of egg-laying or pharyngeal pumping by serotonin (5-HT), for regular pumping in response to bacteria, and probably also for 5-HT to activate MC neurons. SER-7 and SER-1 are redundantly required for normal egg-laying. SER-7 is expressed in head and tail neurons, pharyngeal neurons (M4, MCs, I2s, I3, M5, M3s, I4, I6, and M2s), vulval muscles, and intestine. heterologously expressed SER-7, when challenged with 5-HT, stimulates intracellular adenylate cyclase activity. SER-7 has high affinity for 5-HT and tryptamine, but not for 5-CT, and is unaffected by at least some agonists of mammalian 5-HT7 receptors. [Source: WormBase]
C09B7.1C09B7.1bser-7123 XForwardView as cDNA map |
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ser-7 encodes an ortholog of mammalian 5-HT7 metabotropic serotonin receptors. SER-7 is required for stimulation of egg-laying or pharyngeal pumping by serotonin (5-HT), for regular pumping in response to bacteria, and probably also for 5-HT to activate MC neurons. SER-7 and SER-1 are redundantly required for normal egg-laying. SER-7 is expressed in head and tail neurons, pharyngeal neurons (M4, MCs, I2s, I3, M5, M3s, I4, I6, and M2s), vulval muscles, and intestine. heterologously expressed SER-7, when challenged with 5-HT, stimulates intracellular adenylate cyclase activity. SER-7 has high affinity for 5-HT and tryptamine, but not for 5-CT, and is unaffected by at least some agonists of mammalian 5-HT7 receptors. [Source: WormBase]
C09B7.1C09B7.1cser-7123 XForwardView as cDNA map |
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ser-7 encodes an ortholog of mammalian 5-HT7 metabotropic serotonin receptors. SER-7 is required for stimulation of egg-laying or pharyngeal pumping by serotonin (5-HT), for regular pumping in response to bacteria, and probably also for 5-HT to activate MC neurons. SER-7 and SER-1 are redundantly required for normal egg-laying. SER-7 is expressed in head and tail neurons, pharyngeal neurons (M4, MCs, I2s, I3, M5, M3s, I4, I6, and M2s), vulval muscles, and intestine. heterologously expressed SER-7, when challenged with 5-HT, stimulates intracellular adenylate cyclase activity. SER-7 has high affinity for 5-HT and tryptamine, but not for 5-CT, and is unaffected by at least some agonists of mammalian 5-HT7 receptors. [Source: WormBase]
C09B8.5C09B8.5C09B8.5123 XReverseView as cDNA map |
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C09F12.2C09F12.2C09F12.2123 XForwardView as cDNA map |
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C09G1.5C09G1.5.1C09G1.5123 XForwardView as cDNA map |
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C09G1.5C09G1.5.2C09G1.5123 XForwardView as cDNA map |
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C09G1.5C09G1.5.3C09G1.5123 XForwardView as cDNA map |
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C10A4.8C10A4.8mnm-2123 XReverseView as cDNA map |
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C10E2.3C10E2.3hda-4223 XForwardView as cDNA map |
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hda-4 encodes a class II histone deacetylase that contains a putative MEF-2 DNA binding domain, a nuclear localization signal domain, and a single catalytic domain and may affect locomotion, body morphology, and growth. interacts with MEF-2 in in vitro assays and is expressed in body-wall muscle, neurons, and hypodermal seam cells [Source: WormBase]
C10E2.6C10E2.6.1C10E2.6123 XReverseView as cDNA map |
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C10E2.6C10E2.6.2C10E2.6123 XReverseView as cDNA map |
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C11E4.6C11E4.6.1C11E4.6223 XForwardView as cDNA map |
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C11E4.6C11E4.6.2C11E4.6223 XForwardView as cDNA map |
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C11E4.8C11E4.8C11E4.8123 XForwardView as cDNA map |
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C11H1.2C11H1.2C11H1.2123 XReverseView as cDNA map |
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C14A11.3C14A11.3acgef-1123 XForwardView as cDNA map |
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C14A11.3C14A11.3bcgef-1123 XForwardView as cDNA map |
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C14A11.3C14A11.3ccgef-1123 XForwardView as cDNA map |
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C14A11.7C14A11.7ssr-2123 XReverseView as cDNA map |
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C14E2.6C14E2.6C14E2.6123 XReverseView as cDNA map |
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C14F11.4C14F11.4aC14F11.4123 XReverseView as cDNA map |
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C14F11.4C14F11.4bC14F11.4123 XReverseView as cDNA map |
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C14H10.2C14H10.2aC14H10.2123 XReverseView as cDNA map |
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C15A7.4C15A7.4lgc-24223 XForwardView as cDNA map |
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C15B12.7C15B12.7bcdf-1123 XReverseView as cDNA map |
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a cation diffusion facilitator protein, affects vulva development, genetically interacts with let-60/ras signaling pathway. and is expressed in the vulval muscles, the intestinal cells, and in the vulval precursor cells. [Source: WormBase]
C15B12.8C15B12.8C15B12.8123 XForwardView as cDNA map |
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We gratefully acknowledge support of this work by the William M. Keck Foundation