Gene detail

Detailed information of g13302.t1 in Montipora capitata

Genomic Location: Sc0000453:116191...133132
NR annotation: XP_029180721.2, rho GTPase-activating protein 39-like isoform X1 [Acropora millepora]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g13302.t1

atgtacgcaaatcttaagagtggccagtgcctttgggagccaccaactggagtcagggtaaggaaagcaaatgacactcagtggtgggagctttatgaccagaagactcgtcgttattattactactgtgcaggaactcagacaacagtttggcacaaacccaaggatgtggagatcatcccacttgcaaaactacagactctcaaagccagggaaaaacgcagagcagcaaaggccagggaagagaagagggaaggtttatcaagacgggaaggatcagagaggaagcggagagatggaagcttaagaaaggatgggtcaggtaaacaggatgacagctcattaaacagaagggaaagcagtggacgaaaggatggcatctcaagggatggttcctcgtcacggcgacatggtagtagccgagataagagggaacgagccagctcacgtgatcataggaaacatgatgcagaggaggccagctcttctaatgctctagtagctgttttgaaggaaatcgctgttgtggaaaatggagtggaaagcaaaactgtgaaagatgacactgaaaatgttgttgatgcaacttgtaaagaaataacagcgattgctgatgctccagaagaggaaggaggaagtttggagagacagagatcgcctgaaatcccaatacctgaagtacctcctgtagatttatcacctcatgaagttcaagataagaaagattatttaacggatgaagaaggccccttgacaccctcaggaaccttgtcacgtaatggcactttggatgacagtgccggtgatgaccatctcagtccatcaggcaccattgaaagggcgcggcaggcaatcgaaattgcatccagaactatcattgcaaacagtgctacatctaaattggattcaaggaaagatgatgattccgtctttgttgcaaatggaaatttaaatggcctcaagaaaggccacaagaacagtattgacgattctctgagcttgaaactcagagcaggcggcatgccggctaccacagcacgtctggttgaagcttgtgccccttcatcactcagtgcgagtccgcagaatgttcgctcgttaaggcataaaagacaagtgagtgacagtgtgctgaaggatctgcggcgcgacgatgacgacgacgatgatgatgatgatgatgatgatgatgcgttggaaacaagatcgatagggactccaagcactctgccgcgaattagtcgaccatcttccatagcttccccggccactggatcctcaaagcacaacaccttggaacgttcgcattccattcccggctccaaacctcctctgatgcgagcgcttggtgcttacgaagactactttagtcatcacaagaagggcgtgttcaggcggaaaaggatttcattagcaagcatgctctcctggtcaaaggttccaatcaaaaagccgctgattctaatccaggacaggcagctcaagaaagacgccatcgacacgtttaaggttattctcgggtacatgggtgatcgggcagtcaaggcaaagactccagaaaagctcgcactcgaacttacaaccaagggctggaatacccctgtgctaagagacgagatttatttgcagctctgtaaacagacaacggacaacttcaggccggaaagtttacggcgtggctgggagctgatggcgatctgtctggcgctctttcctccgtcaaccaaattccacacgtatttagaaggatatattaacaaacaccttgaagatgctgactggaaagagtcctctgtttttaacccgtctatgttcggcgcaacactggacgacatcatggaggaacaggccaagcgttttccctcacttcagctaccctggattttacctactctggctgaagcggtactgcatcaccaaggcgcttcaacggaaggtatattcagggttccaggcgatattgacgaggttaactctcaaaaactcaaactcgacagatgggagataccgacggatatcagtgacccgcatgtacccgcctctcttcttaaactttggttcagggaacttcacgaacctcttataccggaacagttttaa

Transcript

g13302.t1

ATGTACGCAAATCTTAAGAGTGGCCAGTGCCTTTGGGAGCCACCAACTGGAGTCAGGGTAAGGAAAGCAAATGACACTCAGTGGTGGGAGCTTTATGACCAGAAGACTCGTCGTTATTATTACTACTGTGCAGGAACTCAGACAACAGTTTGGCACAAACCCAAGGATGTGGAGATCATCCCACTTGCAAAACTACAGACTCTCAAAGCCAGGGAAAAACGCAGAGCAGCAAAGGCCAGGGAAGAGAAGAGGGAAGGTTTATCAAGACGGGAAGGATCAGAGAGGAAGCGGAGAGATGGAAGCTTAAGAAAGGATGGGTCAGGTAAACAGGATGACAGCTCATTAAACAGAAGGGAAAGCAGTGGACGAAAGGATGGCATCTCAAGGGATGGTTCCTCGTCACGGCGACATGGTAGTAGCCGAGATAAGAGGGAACGAGCCAGCTCACGTGATCATAGGAAACATGATGCAGAGGAGGCCAGCTCTTCTAATGCTCTAGTAGCTGTTTTGAAGGAAATCGCTGTTGTGGAAAATGGAGTggaaagcaaaactgtgaaagaTGACACTGAAAATGTTGTTGATGCAACTTGTAAAGAAATAACAGCGATTGCTGATGCTCCAGAAGAGGAAGGAGGAAGTTTGGAGAGACAGAGATCGCCTGAAATCCCAATACCTGAAGTACCTCCTGTAGATTTATCACCTCATGAAGTTCAAGATAAGAAAGATTATTTAACGGATGAAGAAGGCCCCTTGACACCCTCAGGAACCTTGTCACGTAATGGCACTTTGGATGACAGTGCCGGTGATGACCATCTCAGTCCATCAGGCACCATTGAAAGGGCGCGGCAGGCAATCGAAATTGCATCCAGAACTATCATTGCAAACAGTGCTACATCTAAATTGGATTCAAGGAAAGATGATGATTCCGTCTTTGTTGCAAATGGAAATTTAAATGGCCTCAAGAAAGGCCACAAGAACAGTATTGACGATTCTCTGAGCTTGAAACTCAGAGCAGGCGGCATGCCGGCTACCACAGCACGTCTGGTTGAAGCTTGTGCCCCTTCATCACTCAGTGCGAGTCCGCAGAATGTTCGCTCGTTAAGGCATAAAAGACAAGTGAGTGACAGTGTGCTGAAGGATCTGCGGCgcgacgatgacgacgacgatgatgatgatgatgatgatgatgatgcgtTGGAAACAAGATCGATAGGGACTCCAAGCACTCTGCCGCGAATTAGTCGACCATCTTCCATAGCTTCCCCGGCCACTGGATCCTCAAAGCACAACACCTTGGAACGTTCGCATTCCATTCCCGGCTCCAAACCTCCTCTGATGCGAGCGCTTGGTGCTTACGAAGACTACTTTAGTCATCACAAGAAGGGCGTGTTCAGGCGGAAAAGGATTTCATTAGCAAGCATGCTCTCCTGGTCAAAGGTTCCAATCAAAAAGCCGCTGATTCTAATCCAGGACAGGCAGCTCAAGAAAGACGCCATCGACACGTTTAAGGTTATTCTCGGGTACATGGGTGATCGGGCAGTCAAGGCAAAGACTCCAGAAAAGCTCGCACTCGAACTTACAACCAAGGGCTGGAATACCCCTGTGCTAAGAGACGAGATTTATTTGCAGCTCTGTAAACAGACAACGGACAACTTCAGGCCGGAAAGTTTACGGCGTGGCTGGGAGCTGATGGCGATCTGTCTGGCGCTCTTTCCTCCGTCAACCAAATTCCACACGTATTTAGAAGGATATATTAACAAACACCTTGAAGATGCTGACTGGAAAGAGTCCTCTGTTTTTAACCCGTCTATGTTCGGCGCAACACTGGACGACATCATGGAGGAACAGGCCAAGCGTTTTCCCTCACTTCAGCTACCCTGGATTTTACCTACTCTGGCTGAAGCGGTACTGCATCACCAAGGCGCTTCAACGGAAGGTATATTCAGGGTTCCAGGCGATATTGACGAGGTTAACTCTCAAAAACTCAAACTCGACAGATGGGAGATACCGACGGATATCAGTGACCCGCATGTACCCGCCTCTCTTCTTAAACTTTGGTTCAGGGAACTTCACGAACCTCTTATACCGGAACAGTTTTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9C0H5	Rho GTPase-activating protein 39 OS=Homo sapiens OX=9606 GN=ARHGAP39 PE=1 SV=2
P59281	Rho GTPase-activating protein 39 OS=Mus musculus OX=10090 GN=Arhgap39 PE=1 SV=2
Q54QF4	GTPase activating protein homolog 4 OS=Dictyostelium discoideum OX=44689 GN=mgp4 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003516 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00784 all species →	MyTH4	MyTH4 domain	Family	Interproscan
PF00620 all species →	RhoGAP	RhoGAP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR000857 all species →	Domain	MyTH4 domain	Interproscan
IPR000198 all species →	Domain	Rho GTPase-activating protein domain	Interproscan
IPR001202 all species →	Domain	WW domain	Interproscan
IPR036020 all species →	Homologous_superfamily	WW domain superfamily	Interproscan
IPR038185 all species →	Homologous_superfamily	MyTH4 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45876 all species →	FI04035P	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005856 all species →	Cellular Component	cytoskeleton	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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
K20649	ARHGAP39; Rho GTPase-activating protein 39	-	Membrane trafficking	ko04131	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g13302.t1 across 48 RNA-seq samples of Montipora capitata. 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.

48Samples

47TPM > 0

3Conditions

34.2Max TPM

14.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	20	13.63	33.35
whole organisms · low pH treatment	15	15	14.32	34.25
whole organisms · extra low pH treatment pH treatment	12	12	14.54	31.64

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	33.35
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	29.19
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	27.12
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	24.02
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	22.84
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	21.56
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	21.00
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	14.80
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	12.79
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	12.21
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	11.99
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	10.56
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	8.51
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	6.63
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	6.53
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	5.29
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	5.04
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	4.90
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	4.08
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	3.91
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	0.00
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	34.25
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	29.23
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	25.19
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	25.10
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	23.22
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	21.96
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	10.32
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	9.44
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	8.16
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	7.68
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	6.14
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	5.00
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	4.28
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	4.09
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	0.70
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	31.64
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	29.77
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	28.20
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	24.63
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	19.64
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	9.27
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	8.25
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	6.36
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	6.23
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	3.99
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	3.95
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	2.60

Source: CnidoSite RNA-seq expression matrices (MCAPI_TPM, StringTie quantification over 48 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.