Gene detail

Detailed information of g3435.t2 in Acropora digitifera

Genomic Location: chr2Alt:13001827...13023851
NR annotation: XP_029214231.2, proto-oncogene vav-like isoform X2 [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g3435.t2

ATGGCGGGTCGCCATCGAACTCCTCGGGTCGCTTCCGGCCAAGAAGAATGGCAAATGGCCCGAAGTTGGTTGAACAGTTTGGGAGTCTTACCAGATTTTCACAGAGCTTTTTATCCCAGTGCCATTGTTTTTGATCTTGCTCAATGCTTGCGAGATGGCGTTTTGTTATGTCAAGTTGCTAATCGATTACGGCCGAACTCAATTCCAGACATCAACATGAAGCCTCAGATGTCTCCGTTTTACTGTATCAAGAATATTCGAAGTTTCCTTGCAGCCTGCTCGCGGGATTTTAGACTAACTAACGAAGCGTTGTTTGACGTGAGTGATCTCTTGGATGTGTCTGATTTCGCAAAGGTGATAAGAACACTTTCCATCCTCTCTCACACCCACTATGCCATTTCAGCTGGATTTGATCCTTTTCCACCAGATGATTCTGGTCATGATATACAAGATGAGGATATTTACTCAAACCTGGAGGATCTTGCTCTAAACCGTGATATAATTGATGAGGAAAATCCCTACGATGCTGTCACCATTGAGGAGGATACAAAAATATATGAAGACCTTGTTTCTTATCAGAAAGTAGTTCCGAAACCTGAAAGGCAAACATCAATAGAAGAGAAGAGGAAGTATGTTGTAGCTGAGATTTTAGAAACTGAGAAGAGTTATGTTGATGCTCTGAAAATGATTCAAGAGCATTTCATTAAAAGATTGCAAATATCACCAGATGACAAGTCAAGGATCTTTGTTAATATTGAGGATTTGTTGATAACGCATACCAAGTTTGTGAAGAAACTGGAGAAAGCTTGTGACGAGGGGGGAGTTGAAATCAGCATCCTTTTTATAGACTTTAAAGATGAGCTTTTGAAGTATGGAAAATATTGTACAAAAATGCCTGAAGCTCAAATTTATATTGATCATCTATCCAAGACAGATCCAAAGTTCAAAGAGTCTTTAGAGGAATGCCAAAGGAGAGCAAAGAGCAAATTTGCATTGAGATCATTATTAGTTGTCCCATTTCAGAGAGTTTTGAAATATCCACTTCTAATTCAGGAACTTAACAAGCAAACAAGATCAACACATACAGACAAGAAGGGTCTTGAAAAAGCACTAGCAACTGTACAGGATGTAGCAAAGTATATCAACCAGTTGAAACGAGATGATGAAAACTTGAGGTCTGTTCAAGATGTCCAGGAAAGCTTGAGCAGCGAAGTGGATATTCAATTAGTTAATTTTGGTCATCTCATCAAAGATGGCGAACTTCTAGTTAAAGTTAGCGATCAGCCACCAAAGAAAAGGCATGCATTTCTCTTTGACAAGGCATTCATCATTTGCAAAGCGAAGAGCGACACTTATCATCATAAACAATCACTTCATCTACAGTATTTCGAAATTCAAGATGTATCCTTAAATCCTGTAAAAAATAATAAATTTTCTTATAGTTGGCACATGAAAGGTGTAGAAGGTGATCGCAACTCGTGTGATATGTCCACAAAAACACTTGACATGAAATCCAAATGGATAGCAGATCTTACAATGGCTATAGAAAATCTTACCTTAAAGGGCATTGACCAAGGAAATCATGACTTCCAGTTATACACGTTTCAAACGCCAACATACTGCAGTGTTTGCAAAAATCTCTTGTGGGGATTAATAAACCAAGGCTACAAATGTTCAGTGTGCGACGCCGCTGCTCACAAGGATTGCATAAGCAAGAGCAGTGCATGTTTAACAAGCCCAGGCCAGCGCGCCAAATTTCCCGGGACGTCACCGTTTCGTCCCAATGTGAACCTAAGGAATCCATTCGGCAAGTCAGCGTCAACGAATACTCCCCCATCCACACTCAGTCCCGACTTATCGAAAAGTAGAAAGACGTCGGCGCCAGCGAGGATGCGGGCAGGGCAGCGAGGAGAGAAATGGAGCAGGACAATTCTTCTTTATTCCGCGATATCAAATTTCGCTGGCTTGGCTCCTGGGGGTCGCCCTAATTTAAGTTTTGTCGTCGGCGATGAAATTGAAGTTGTCAATAAAAACGATCCTGAGTGGTGGGAGGGACGGTCAAAACGAACGGGGGCTGTTGGCTATTTTCCTCAAAGCCACGTGACCGCAAAAGCAACATCCCGTTATGAAGAAACCACAATAAGAGAGGAAACTCATCCAACGCCTCCTCCGGCTACTTTGAATGCTTCCTTAAAGAATTTCAACTGGTTCGCGGGGAGGAGAGACCGACCGCAGGCAGAGCAGATGCTAAGCGCGAAAAGCGATGGCACCTTCTTAATAAGGGAGAGTGTCAATAGAGGTGGAGAGTATGCTTTATCCGTCAAGTTTCGTAGCAATGTGAAACACATAAAAATCCCTTACGAAGAAGGCGCGTTCTATTTGACAAAAGCGATTTCTTTTGGATCGATTGAGGAACTGGTTGACTATTACAAGCTCAACACTCTTGGCGTGAGTTTTCCCGGACTGGACACAAACTTACGGCAAGGTGTGAATGAAGAACCCAAAATGAAAGGCGTTGGCTGGGCCAAAGCCATGTACCCTTACAACGCTAGGAACGCCAAAGAAATATCAATTCAGAGAAATTCTAGAATTCTTATTCTTAACAAGGAAGGCGATTGGTGGAAAGGAGAATGCGATGGGCAGGTTGGCTACTTTCCATCGAATTACGTCGAAGTGCTAAAAGAGAACATGGAAACAAAGAATTCGTAG

Transcript

chr2Alt.g3435.t2

GTTTCTTTTTCCAGTTTTCTTTTAAAACATTGACGCCAACCTCCGCGTCAGCGCAATGACTTCCGGTGTGATGAAAGGAAGGGAGCCGAAGACTATTATGGTCTACCAAACTGCCACTGTCCTTTTCTTGAACCAAACATGGCGGGTCGCCATCGAACTCCTCGGGTCGCTTCCGGCCAAGAAGAATGGCAAATGGCCCGAAGTTGGTTGAACAGTTTGGGAGTCTTACCAGATTTTCACAGAGCTTTTTATCCCAGTGCCATTGTTTTTGATCTTGCTCAATGCTTGCGAGATGGCGTTTTGTTATGTCAAGTTGCTAATCGATTACGGCCGAACTCAATTCCAGACATCAACATGAAGCCTCAGATGTCTCCGTTTTACTGTATCAAGAATATTCGAAGTTTCCTTGCAGCCTGCTCGCGGGATTTTAGACTAACTAACGAAGCGTTGTTTGACGTGAGTGATCTCTTGGATGTGTCTGATTTCGCAAAGGTGATAAGAACACTTTCCATCCTCTCTCACACCCACTATGCCATTTCAGCTGGATTTGATCCTTTTCCACCAGATGATTCTGGTCATGATATACAAGATGAGGATATTTACTCAAACCTGGAGGATCTTGCTCTAAACCGTGATATAATTGATGAGGAAAATCCCTACGATGCTGTCACCATTGAGGAGGATACAAAAATATATGAAGACCTTGTTTCTTATCAGAAAGTAGTTCCGAAACCTGAAAGGCAAACATCAATAGAAGAGAAGAGGAAGTATGTTGTAGCTGAGATTTTAGAAACTGAGAAGAGTTATGTTGATGCTCTGAAAATGATTCAAGAGCATTTCATTAAAAGATTGCAAATATCACCAGATGACAAGTCAAGGATCTTTGTTAATATTGAGGATTTGTTGATAACGCATACCAAGTTTGTGAAGAAACTGGAGAAAGCTTGTGACGAGGGGGGAGTTGAAATCAGCATCCTTTTTATAGACTTTAAAGATGAGCTTTTGAAGTATGGAAAATATTGTACAAAAATGCCTGAAGCTCAAATTTATATTGATCATCTATCCAAGACAGATCCAAAGTTCAAAGAGTCTTTAGAGGAATGCCAAAGGAGAGCAAAGAGCAAATTTGCATTGAGATCATTATTAGTTGTCCCATTTCAGAGAGTTTTGAAATATCCACTTCTAATTCAGGAACTTAACAAGCAAACAAGATCAACACATACAGACAAGAAGGGTCTTGAAAAAGCACTAGCAACTGTACAGGATGTAGCAAAGTATATCAACCAGTTGAAACGAGATGATGAAAACTTGAGGTCTGTTCAAGATGTCCAGGAAAGCTTGAGCAGCGAAGTGGATATTCAATTAGTTAATTTTGGTCATCTCATCAAAGATGGCGAACTTCTAGTTAAAGTTAGCGATCAGCCACCAAAGAAAAGGCATGCATTTCTCTTTGACAAGGCATTCATCATTTGCAAAGCGAAGAGCGACACTTATCATCATAAACAATCACTTCATCTACAGTATTTCGAAATTCAAGATGTATCCTTAAATCCTGTAAAAAATAATAAATTTTCTTATAGTTGGCACATGAAAGGTGTAGAAGGTGATCGCAACTCGTGTGATATGTCCACAAAAACACTTGACATGAAATCCAAATGGATAGCAGATCTTACAATGGCTATAGAAAATCTTACCTTAAAGGGCATTGACCAAGGAAATCATGACTTCCAGTTATACACGTTTCAAACGCCAACATACTGCAGTGTTTGCAAAAATCTCTTGTGGGGATTAATAAACCAAGGCTACAAATGTTCAGTGTGCGACGCCGCTGCTCACAAGGATTGCATAAGCAAGAGCAGTGCATGTTTAACAAGCCCAGGCCAGCGCGCCAAATTTCCCGGGACGTCACCGTTTCGTCCCAATGTGAACCTAAGGAATCCATTCGGCAAGTCAGCGTCAACGAATACTCCCCCATCCACACTCAGTCCCGACTTATCGAAAAGTAGAAAGACGTCGGCGCCAGCGAGGATGCGGGCAGGGCAGCGAGGAGAGAAATGGAGCAGGACAATTCTTCTTTATTCCGCGATATCAAATTTCGCTGGCTTGGCTCCTGGGGGTCGCCCTAATTTAAGTTTTGTCGTCGGCGATGAAATTGAAGTTGTCAATAAAAACGATCCTGAGTGGTGGGAGGGACGGTCAAAACGAACGGGGGCTGTTGGCTATTTTCCTCAAAGCCACGTGACCGCAAAAGCAACATCCCGTTATGAAGAAACCACAATAAGAGAGGAAACTCATCCAACGCCTCCTCCGGCTACTTTGAATGCTTCCTTAAAGAATTTCAACTGGTTCGCGGGGAGGAGAGACCGACCGCAGGCAGAGCAGATGCTAAGCGCGAAAAGCGATGGCACCTTCTTAATAAGGGAGAGTGTCAATAGAGGTGGAGAGTATGCTTTATCCGTCAAGTTTCGTAGCAATGTGAAACACATAAAAATCCCTTACGAAGAAGGCGCGTTCTATTTGACAAAAGCGATTTCTTTTGGATCGATTGAGGAACTGGTTGACTATTACAAGCTCAACACTCTTGGCGTGAGTTTTCCCGGACTGGACACAAACTTACGGCAAGGTGTGAATGAAGAACCCAAAATGAAAGGCGTTGGCTGGGCCAAAGCCATGTACCCTTACAACGCTAGGAACGCCAAAGAAATATCAATTCAGAGAAATTCTAGAATTCTTATTCTTAACAAGGAAGGCGATTGGTGGAAAGGAGAATGCGATGGGCAGGTTGGCTACTTTCCATCGAATTACGTCGAAGTGCTAAAAGAGAACATGGAAACAAAGAATTCGTAGGAACTTCATTAGAGCATTAATTATGGATAGTCAACTAATCACACCTCTGCTGTCGTCAATAATTATTGTACTATTTATAATTTCTGTTGAAAAGTGTACAGTCAAGTTGTAACTTTACTTGCGAAAAAGAAAAAAGTCAACAACTCTGAAATCAATGTGAAACCTCAACTGTAGGAAAAATAAAATGATCTGGACGCT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P54100	Proto-oncogene vav OS=Rattus norvegicus OX=10116 GN=Vav1 PE=2 SV=1
Q08DN7	Proto-oncogene vav OS=Bos taurus OX=9913 GN=VAV1 PE=2 SV=1
P15498	Proto-oncogene vav OS=Homo sapiens OX=9606 GN=VAV1 PE=1 SV=4

Gene family

Family type	Membership / link
Ubiquitin family	UBD\|Other\|SH3 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00017 all species →	SH2	SH2 domain	Domain	Interproscan
PF00018 all species →	SH3_1	SH3 domain	Domain	Interproscan
PF00169 all species →	PH	PH domain	Domain	Interproscan
PF00130 all species →	C1_1	Phorbol esters/diacylglycerol binding domain (C1 domain)	Domain	Interproscan
PF00307 all species →	CH	Calponin homology (CH) domain	Domain	Interproscan
PF00621 all species →	RhoGEF	RhoGEF domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036872 all species →	Homologous_superfamily	CH domain superfamily	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan
IPR000980 all species →	Domain	SH2 domain	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR002219 all species →	Domain	Protein kinase C-like, phorbol ester/diacylglycerol-binding domain	Interproscan
IPR000219 all species →	Domain	Dbl homology (DH) domain	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR001331 all species →	Conserved_site	Guanine-nucleotide dissociation stimulator, CDC24, conserved site	Interproscan
IPR035899 all species →	Homologous_superfamily	Dbl homology (DH) domain superfamily	Interproscan
IPR001715 all species →	Domain	Calponin homology domain	Interproscan
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR036860 all species →	Homologous_superfamily	SH2 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45818 all species →	PROTEIN VAV	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005085 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0035556 all species →	Biological Process	intracellular signal transduction	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016477 all species →	Biological Process	cell migration	Interproscan
GO:0043087 all species →	Biological Process	regulation of GTPase activity	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K05730	VAV; guanine nucleotide exchange factor VAV	-	Lipid and atherosclerosis	ko05417	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of g3435.t2 across 39 RNA-seq samples of Acropora digitifera. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

39Samples

0TPM > 0

1Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	0	0.00	0.00

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931

Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM, StringTie quantification over 39 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.