Gene detail

Detailed information of evm.model.Ap14.929 in Astrangia poculata

Genomic Location: Ap14:9852509...9855673
NR annotation: XP_020602328.1, rho GTPase-activating protein syd-1-like [Orbicella faveolata]
Species Astrangia poculata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Ap14.929

atgtgggaggcgaatgcattgacgcaaaagaatggaaatttatggagtacaaacgtgtcaacagtgtcaaacgacttgagcgaaatcgagtttagtttcgatgagcgccctacggcaacgaaatcatcgctcgcaaatgaaatggatacaaggacacaacaaaacattgcacaaaggacattgactcctgatataatcgcaaaaatacaagcgataggaaataatgaagacgacatcggtacaatccaaacagactcaacatcgagcaggaaaatttcgcatcgaacgggagataagctggcagcggattttaccggcgagttgtcgagccacggtgtcaaagtgaaagatgacgatcgcttggatgagtcaggaagatttattattcgcagtgtagtgattgttaaaaattctgcgtcaccgctagggttttttattcgacaaggtgatggagtatttaagaaacacggtatatttgtctcacgtgtggcgcaggggagttttgttgacgcgaatggactgctcaaagttggagatgaaatcattgccgtgaattacgtcgacatcgaaggcttcaacttggacgatgtagtgcgtatgattcaagctcctcgaaaattgattttgaccattcggataaatgcgttcttaatcaagcagagtgcgttcgagggagattcatacggctctctagcaactaatacgcagaaaaaggcagagaaagcgacatcaaaggctttaaaaatcaaagctaagcagtctcgggcaaatgattataaagaacccagcaacaaaggtaaacaaactctgcaaacagaagcggaaaatgctaaagtggacaataatgcaaatgagcagcaggacggcgttttaaaatcaacagttcattccgaagactcgtcgaccattgaagatcttattaacgcgattcgtgcgcaaaacagtcgatcaaagaagagcaagagaaatttcgagcaaggcgaaggcaactgcacattatcttccgaagactctcgcaattcaacgagcaatctgttcaaacagaaggacttcagtaaagccgagagtccacagatgagaaaagcgtcggctgacagtatagttttgtcaaataggccacctccaaacgccggtcgaaagtcaagcaccttaacgcctgttacctcggtcaatttgatttttgatgatcccgacgattttgctcttacaactcccattacgaagaacagtaattcaagcgaagaatcgttaaaagtttcttttacggggatgtattcacgaagccctccgggttctcccggaggcagcccgaaggcaagacgaagacttccgtctgtgcctgcagaccccacgcgcactattcgtagtgacagcgtttcacccacgtctcccaaaccactgctaaacctcccagcggagcctaggagccgccgaatgcttccgacacccccgccttccccggttgccccgcataaagccgaagtggccaacagtcggcaaacaagctcgtccacaggtgaaagtccagagagtggaaggccaaataggaacagttggactggatcggtggacagtgatgcgatggatgaaaaatcaccagcgccctcgccctcgagaaaagagtcaagtttatcgctgagccaaatttttggcgcatttgccttgaaaacccattcagatagcagcgatgcagcagaaaagagcaaagacggagagaggaacgagtcttataaaatcccatcgtcacccaaacggcctacgcgcaagagcgaatcacatcgagacgacatcttggagcagcagaggcactctatgctgctacattcgtacgcctctggtgggctacagcctcctaaaaggcttgcaagtcgttcgtcgcaaccgaatttgaaacttttaatgccagttcaggaggaaactactaaatccaagctctctacttcgccatcccatgagagctcaaaattttctccaaaactctacagaaggcgcgccagcatgaattccataagtgacaagagcttgaccaatcagatcgcttcgcaggatttgactgacagtgaccgtctcagaagtgaggcagaacctgggttcttgatattcccggatgactatagtggacataaccttttgtcgtcacacgcagtctcgggtatggtgtctttgtacatcatcaaagccacgcacttgcctttcgcggataagaagctcttggaaaagaaaaagaaagtgttctgtgctgttgaggtggactttgaacgaaaagctttcacaagtaccaagagagcatcaaaaactttatcctgggatgaagtttttgaagtagaagtacaacatggccgagaagtgtgcctttcttgcttcacgtcaagccacgaatttgacaagcctgtggctaaagcgtcttttaacctgtcgccttttgtgagatgcgggcagcaacataatgttgtgtttcgtatgcatccacaaggcacgattcatgtgagaatggaattcattgagatgaagacgttgcttaaacgggctccgtccgatagaaaatcgggcgtgtttggctttcaactgaatgtgacctcgcgaaacgagaaagtgagtgtgccattaatcgtacgcaattgcgtggaagagattgagaagcgaggactaaaggctgtggggctgtacagaatttccgggaacgcccgacggaagaaactgctaaaggcgcaatttgatgaagacagtaccgccgtcgatttgtcggaagaaagctaccctgatattaacatcatcgcgggcattctcaaggattacctccgagagctccccgagccgttgattacagaatcattatcaaagcagctgatcaaagcagctaaagaacaggttcaagatcaggacttagccgcacagaagcgttttatttccaagctactcgtccagttaccacagaacaacagagagacccttgtctatctgttgaatcatttcatgcgggtcattgctgagaaggacacaaacaaaatggacgggcacaatctgtcagtgtgtttcggccccgttctgttatgtcccccggcgaacctcaccgagggtaaagacttacttgatctcaaacttcatgttagaattgtagagtttctcatttttctgtggaagaacgccggtgtaactcccgggtag

Transcript

evm.model.Ap14.929

ATGTGGGAGGCGAATGCATTGACGCAAAAGAATGGAAATTTATGGAGTACAAACGTGTCAACAGTGTCAAACGACTTGAGCGAAATCGAGTTTAGTTTCGATGAGCGCCCTACGGCAACGAAATCATCGCTCGCAAATGAAATGGATACAAGGACACAACAAAACATTGCACAAAGGACATTGACTCCTGATATAATCGCAAAAATACAAGCGATAGGAAATAATGAAGACGACATCGGTACAATCCAAACAGACTCAACATCGAGCAGGAAAATTTCGCATCGAACGGGAGATAAGCTGGCAGCGGATTTTACCGGCGAGTTGTCGAGCCACGGTGTCAAAGTGAAAGATGACGATCGCTTGGATGAGTCAGGAAGATTTATTATTCGCAGTGTAGTGATTGTTAAAAATTCTGCGTCACCGCTAGGGTTTTTTATTCGACAAGGTGATGGAGTATTTAAGAAACACGGTATATTTGTCTCACGTGTGGCGCAGGGGAGTTTTGTTGACGCGAATGGACTGCTCAAAGTTGGAGATGAAATCATTGCCGTGAATTACGTCGACATCGAAGGCTTCAACTTGGACGATGTAGTGCGTATGATTCAAGCTCCTCGAAAATTGATTTTGACCATTCGGATAAATGCGTTCTTAATCAAGCAGAGTGCGTTCGAGGGAGATTCATACGGCTCTCTAGCAACTAATACGCAGAAAAAGGCAGAGAAAGCGACATCAAAGGCTTTAAAAATCAAAGCTAAGCAGTCTCGGGCAAATGATTATAAAGAACCCAGCAACAAAGGTAAACAAACTCTGCAAACAGAAGCGGAAAATGCTAAAGTGGACAATAATGCAAATGAGCAGCAGGACGGCGTTTTAAAATCAACAGTTCATTCCGAAGACTCGTCGACCATTGAAGATCTTATTAACGCGATTCGTGCGCAAAACAGTCGATCAAAGAAGAGCAAGAGAAATTTCGAGCAAGGCGAAGGCAACTGCACATTATCTTCCGAAGACTCTCGCAATTCAACGAGCAATCTGTTCAAACAGAAGGACTTCAGTAAAGCCGAGAGTCCACAGATGAGAAAAGCGTCGGCTGACAGTATAGTTTTGTCAAATAGGCCACCTCCAAACGCCGGTCGAAAGTCAAGCACCTTAACGCCTGTTACCTCGGTCAATTTGATTTTTGATGATCCCGACGATTTTGCTCTTACAACTCCCATTACGAAGAACAGTAATTCAAGCGAAGAATCGTTAAAAGTTTCTTTTACGGGGATGTATTCACGAAGCCCTCCGGGTTCTCCCGGAGGCAGCCCGAAGGCAAGACGAAGACTTCCGTCTGTGCCTGCAGACCCCACGCGCACTATTCGTAGTGACAGCGTTTCACCCACGTCTCCCAAACCACTGCTAAACCTCCCAGCGGAGCCTAGGAGCCGCCGAATGCTTCCGACACCCCCGCCTTCCCCGGTTGCCCCGCATAAAGCCGAAGTGGCCAACAGTCGGCAAACAAGCTCGTCCACAGGTGAAAGTCCAGAGAGTGGAAGGCCAAATAGGAACAGTTGGACTGGATCGGTGGACAGTGATGCGATGGATGAAAAATCACCAGCGCCCTCGCCCTCGAGAAAAGAGTCAAGTTTATCGCTGAGCCAAATTTTTGGCGCATTTGCCTTGAAAACCCATTCAGATAGCAGCGATGCAGCAGAAAAGAGCAAAGACGGAGAGAGGAACGAGTCTTATAAAATCCCATCGTCACCCAAACGGCCTACGCGCAAGAGCGAATCACATCGAGACGACATCTTGGAGCAGCAGAGGCACTCTATGCTGCTACATTCGTACGCCTCTGGTGGGCTACAGCCTCCTAAAAGGCTTGCAAGTCGTTCGTCGCAACCGAATTTGAAACTTTTAATGCCAGTTCAGGAGGAAACTACTAAATCCAAGCTCTCTACTTCGCCATCCCATGAGAGCTCAAAATTTTCTCCAAAACTCTACAGAAGGCGCGCCAGCATGAATTCCATAAGTGACAAGAGCTTGACCAATCAGATCGCTTCGCAGGATTTGACTGACAGTGACCGTCTCAGAAGTGAGGCAGAACCTGGGTTCTTGATATTCCCGGATGACTATAGTGGACATAACCTTTTGTCGTCACACGCAGTCTCGGGTATGGTGTCTTTGTACATCATCAAAGCCACGCACTTGCCTTTCGCGGATAAGAAGCTCTTGGAAAAGAAAAAGAAAGTGTTCTGTGCTGTTGAGGTGGACTTTGAACGAAAAGCTTTCACAAGTACCAAGAGAGCATCAAAAACTTTATCCTGGGATGAAGTTTTTGAAGTAGAAGTACAACATGGCCGAGAAGTGTGCCTTTCTTGCTTCACGTCAAGCCACGAATTTGACAAGCCTGTGGCTAAAGCGTCTTTTAACCTGTCGCCTTTTGTGAGATGCGGGCAGCAACATAATGTTGTGTTTCGTATGCATCCACAAGGCACGATTCATGTGAGAATGGAATTCATTGAGATGAAGACGTTGCTTAAACGGGCTCCGTCCGATAGAAAATCGGGCGTGTTTGGCTTTCAACTGAATGTGACCTCGCGAAACGAGAAAGTGAGTGTGCCATTAATCGTACGCAATTGCGTGGAAGAGATTGAGAAGCGAGGACTAAAGGCTGTGGGGCTGTACAGAATTTCCGGGAACGCCCGACGGAAGAAACTGCTAAAGGCGCAATTTGATGAAGACAGTACCGCCGTCGATTTGTCGGAAGAAAGCTACCCTGATATTAACATCATCGCGGGCATTCTCAAGGATTACCTCCGAGAGCTCCCCGAGCCGTTGATTACAGAATCATTATCAAAGCAGCTGATCAAAGCAGCTAAAGAACAGGTTCAAGATCAGGACTTAGCCGCACAGAAGCGTTTTATTTCCAAGCTACTCGTCCAGTTACCACAGAACAACAGAGAGACCCTTGTCTATCTGTTGAATCATTTCATGCGGGTCATTGCTGAGAAGGACACAAACAAAATGGACGGGCACAATCTGTCAGTGTGTTTCGGCCCCGTTCTGTTATGTCCCCCGGCGAACCTCACCGAGGGTAAAGACTTACTTGATCTCAAACTTCATGTTAGAATTGTAGAGTTTCTCATTTTTCTGTGGAAGAACGCCGGTGTAACTCCCGGGTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9V9S7	Rho GTPase-activating protein 100F OS=Drosophila melanogaster OX=7227 GN=RhoGAP100F PE=1 SV=2
Q5VT97	Rho GTPase-activating protein SYDE2 OS=Homo sapiens OX=9606 GN=SYDE2 PE=1 SV=2
A6QNS3	Active breakpoint cluster region-related protein OS=Bos taurus OX=9913 GN=ABR PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007735 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00595 all species →	PDZ	PDZ domain	Domain	Interproscan
PF00168 all species →	C2	C2 domain	Domain	Interproscan
PF00620 all species →	RhoGAP	RhoGAP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR000198 all species →	Domain	Rho GTPase-activating protein domain	Interproscan
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	Interproscan
IPR052118 all species →	Family	Rho GTPase-activating regulator	Interproscan
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46150 all species →	RHO GTPASE-ACTIVATING PROTEIN 100F	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0016477 all species →	Biological Process	cell migration	Interproscan
GO:0046578 all species →	Biological Process	regulation of Ras protein signal transduction	Interproscan
GO:0097060 all species →	Cellular Component	synaptic membrane	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

No KEGG orthology assignment for evm.model.Ap14.929.

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

Expression pattern (RNA-seq)

Transcript abundance of evm.model.Ap14.929 across 49 RNA-seq samples of Astrangia poculata. 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.

49Samples

5TPM > 0

4Conditions

687.1Max TPM

21.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organism · cold control	14	3	67.37	687.13
whole organism · heat control	12	1	1.13	13.56
whole organism · cold challenge	12	0	0.00	0.00
whole organism · heat challenge	11	1	10.46	115.06

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR10674748	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	687.13
SRR10674733	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	138.27
SRR10674735	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	117.82
SRR10674714	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674715	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674724	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674734	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674736	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674737	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674739	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674743	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674746	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674747	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674750	whole organism · cold control	whole organism	not recorded	cold control	SRP237293	0.00
SRR10674731	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	13.56
SRR10674706	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674707	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674708	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674717	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674718	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674720	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674721	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674725	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674741	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674752	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674753	whole organism · heat control	whole organism	not recorded	heat control	SRP237293	0.00
SRR10674711	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674712	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674713	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674722	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674723	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674730	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674732	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674738	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674740	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674744	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674745	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674749	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293	0.00
SRR10674754	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	115.06
SRR10674709	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674710	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674716	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674719	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674726	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674727	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674728	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674729	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674742	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00
SRR10674751	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293	0.00

Source: CnidoSite RNA-seq expression matrices (APOCU_TPM, StringTie quantification over 49 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.