Gene detail

Detailed information of evm.model.Ap3.1219 in Astrangia poculata

Genomic Location: Ap3:13401534...13419565
NR annotation: CAH3108550.1, unnamed protein product, partial [Pocillopora meandrina]
Species Astrangia poculata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Ap3.1219

atgcaaacctggaaaattgtaaactctgctcttgatgtgatcaataccactcatttacaagtattcttgtcttttcaacagcgatggctcacagaacaaagacctcagtgcccgcattgcagagcctcattacatctccatgaacttgttcattgtcgatgggttgaagaagtcacccagcaactagactcacttcagttaacagggcctcccaaaacgaaagatgaagccgacaaagacagatgtgacatccatcatgagaaactcagtgttttctgcagcacttgcaagcagtgtatctgtcatcagtgtgccctgtggggtggaacacattctggtcacactttcaagcctttggatgaagtgtatgatcaacatgtgtcctctatcacagatgaggttgcagcattgaggcgccgacttatggaacttatcagtcttgttcaagaagtggaacgaaatgttgaaagtttacgcgaagctaaagaagagcgtgttcgtgaaatccgtaatgcagttgaattgatgatagctcgcttggatactcaacttaagagtaaactgctcactcttatgggacagaaaaactcactaactcaggagacagaattgttggaatccttgttacaagaagtggagcaccagctgcactcatgttccaggagtgaactcattgccaagagtggtgaacttttgcagatgtttaatcaggtccatcgtaagccaatggcatcctttgttagccctccaataccagctgatttttcaagtgaaattgtacctggatatgacacaagcacattctgtattacaaatttcagtttgttacgcaggaaggcggatcctgtttacagtgaacccttaaatataagtggactaagttggagactcaaggtgtatccagatggtaatggtgtggtgcgaggtaactacctatctgtgttcctggagctctcagctggactgccagaaacatccaagtatgaatacagagttgaaatgatacatcatgcttctcctgactcaagcaaaaatattgtcagggaatttgcttctgactttgaagttggtgaatgttggggttataacagatttttccgtttggatcttttgggaagtgaaggatatttgaatacagcaaatgacacgttgattctaagatttcaagtcagacctccaaccttctaccaaaagtgtagagatcagcaatggtatatcaatcaacttgaaactggtcagacacagtacatccaacagattaacgacttaaaagagcgacttgccattgagctgtccaggaatcatgcaccgactccaacagcagctgcaggcagtgtgtcagacatgagtcacgtgtctctactggaacagtcactagataacatggacgacgataatgatcatttggttaccaagcaacacagtgatggacaggtgatgataaggcaggcacagtccagcagaccacgtgctacagtacacactgcaattgatgtagaaactgcttcagggccaattcttccagcctcagaggaaggggaagaggtagttgatggagacatgaatgaagaagatgagaatgcagaggaagatgaggaagaaagtggtgcagacagtggcgaggaggagaatgaagtggagggaggaaggacagaggctgaagacgacacatcagaaccagagggaactgaggaggactccttaagagatgatactctagaagaggaagctttgcaagatcttgtcccgtgttcagagagtccccatgaagaacaagaagctgctcaacagaaggagcaagaggcctgggatgtggaggatgttgaactggaattctttgatattaacagcatgactgagcaaagagaagaggtagaacccaagccagaggtattgttagctcagcagaacagttgtgctaactgtcttcctaacaatcaaagctctcttattgatgcagaagaaagagcactccttaatctgctaaagtttgacaatagaggccccagagggtcgcgctggaatgctcctggagtgtccaggaggtatgttacactagtggaatggccaaagagaggagacgagtctgacaaggacaaacacaaagatcgagtcaaaaagagagctcgcttggagaaaaccagcagtatgttggaaagattgcagagctgtttaacccgcgcagaagctcacaaggcagttgctgcttctcttgatagtgctaaagccttagaagaatccttgtcaaatggaagttatcccaagacgtcaagatctggagcaggcaatgtcaggcctcatcgcagaggtgcttcactacccagcttagagggttctggtgatttgaaaaatcgtacttcaccaaagaaaccaggtgctgcagctagtatttgtatcagcagctcagggctggcaggggcagcttgtaacatccctcctgaccatgatgacgggtgtggcagccctgagccagacctgtcagcaccccatcacttgccagaaatggacacagatgtaccacgttccaggccaaaagatactaaacgaaaggtacacagagcaaacacttctcactccacagttggaactgaaggtcttcagttaagttctcagttactgtcagaccttaaacgtgcctcgaccatcaacaaaacgtacagaatgaggtactctgcaactgaggaagaactattacagtctttaagcacttctcacatcgttcctgcacaagatccttgtcctcctggtggtagtacagataacactttgatgccatcactgagtgcggcattacactcagcaggagacgagtatcactttaacatccaatag

Transcript

evm.model.Ap3.1219

ATGCAAACCTGGAAAATTGTAAACTCTGCTCTTGATGTGATCAATACCACTCATTTACAAGTATTCTTGTCTTTTCAACAGCGATGGCTCACAGAACAAAGACCTCAGTGCCCGCATTGCAGAGCCTCATTACATCTCCATGAACTTGTTCATTGTCGATGGGTTGAAGAAGTCACCCAGCAACTAGACTCACTTCAGTTAACAGGGCCTCCCAAAACGAAAGATGAAGCCGACAAAGACAGATGTGACATCCATCATGAGAAACTCAGTGTTTTCTGCAGCACTTGCAAGCAGTGTATCTGTCATCAGTGTGCCCTGTGGGGTGGAACACATTCTGGTCACACTTTCAAGCCTTTGGATGAAGTGTATGATCAACATGTGTCCTCTATCACAGATGAGGTTGCAGCATTGAGGCGCCGACTTATGGAACTTATCAGTCTTGTTCAAGAAGTGGAACGAAATGTTGAAAGTTTACGCGAAGCTAAAGAAGAGCGTGTTCGTGAAATCCGTAATGCAGTTGAATTGATGATAGCTCGCTTGGATACTCAACTTAAGAGTAAACTGCTCACTCTTATGGGACAGAAAAACTCACTAACTCAGGAGACAGAATTGTTGGAATCCTTGTTACAAGAAGTGGAGCACCAGCTGCACTCATGTTCCAGGAGTGAACTCATTGCCAAGAGTGGTGAACTTTTGCAGATGTTTAATCAGGTCCATCGTAAGCCAATGGCATCCTTTGTTAGCCCTCCAATACCAGCTGATTTTTCAAGTGAAATTGTACCTGGATATGACACAAGCACATTCTGTATTACAAATTTCAGTTTGTTACGCAGGAAGGCGGATCCTGTTTACAGTGAACCCTTAAATATAAGTGGACTAAGTTGGAGACTCAAGGTGTATCCAGATGGTAATGGTGTGGTGCGAGGTAACTACCTATCTGTGTTCCTGGAGCTCTCAGCTGGACTGCCAGAAACATCCAAGTATGAATACAGAGTTGAAATGATACATCATGCTTCTCCTGACTCAAGCAAAAATATTGTCAGGGAATTTGCTTCTGACTTTGAAGTTGGTGAATGTTGGGGTTATAACAGATTTTTCCGTTTGGATCTTTTGGGAAGTGAAGGATATTTGAATACAGCAAATGACACGTTGATTCTAAGATTTCAAGTCAGACCTCCAACCTTCTACCAAAAGTGTAGAGATCAGCAATGGTATATCAATCAACTTGAAACTGGTCAGACACAGTACATCCAACAGATTAACGACTTAAAAGAGCGACTTGCCATTGAGCTGTCCAGGAATCATGCACCGACTCCAACAGCAGCTGCAGGCAGTGTGTCAGACATGAGTCACGTGTCTCTACTGGAACAGTCACTAGATAACATGGACGACGATAATGATCATTTGGTTACCAAGCAACACAGTGATGGACAGGTGATGATAAGGCAGGCACAGTCCAGCAGACCACGTGCTACAGTACACACTGCAATTGATGTAGAAACTGCTTCAGGGCCAATTCTTCCAGCCTCAGAGGAAGGGGAAGAGGTAGTTGATGGAGACATGAATGAAGAAGATGAGAATGCAGAGGAAGATGAGGAAGAAAGTGGTGCAGACAGTGGCGAGGAGGAGAATGAAGTGGAGGGAGGAAGGACAGAGGCTGAAGACGACACATCAGAACCAGAGGGAACTGAGGAGGACTCCTTAAGAGATGATACTCTAGAAGAGGAAGCTTTGCAAGATCTTGTCCCGTGTTCAGAGAGTCCCCATGAAGAACAAGAAGCTGCTCAACAGAAGGAGCAAGAGGCCTGGGATGTGGAGGATGTTGAACTGGAATTCTTTGATATTAACAGCATGACTGAGCAAAGAGAAGAGGTAGAACCCAAGCCAGAGGTATTGTTAGCTCAGCAGAACAGTTGTGCTAACTGTCTTCCTAACAATCAAAGCTCTCTTATTGATGCAGAAGAAAGAGCACTCCTTAATCTGCTAAAGTTTGACAATAGAGGCCCCAGAGGGTCGCGCTGGAATGCTCCTGGAGTGTCCAGGAGGTATGTTACACTAGTGGAATGGCCAAAGAGAGGAGACGAGTCTGACAAGGACAAACACAAAGATCGAGTCAAAAAGAGAGCTCGCTTGGAGAAAACCAGCAGTATGTTGGAAAGATTGCAGAGCTGTTTAACCCGCGCAGAAGCTCACAAGGCAGTTGCTGCTTCTCTTGATAGTGCTAAAGCCTTAGAAGAATCCTTGTCAAATGGAAGTTATCCCAAGACGTCAAGATCTGGAGCAGGCAATGTCAGGCCTCATCGCAGAGGTGCTTCACTACCCAGCTTAGAGGGTTCTGGTGATTTGAAAAATCGTACTTCACCAAAGAAACCAGGTGCTGCAGCTAGTATTTGTATCAGCAGCTCAGGGCTGGCAGGGGCAGCTTGTAACATCCCTCCTGACCATGATGACGGGTGTGGCAGCCCTGAGCCAGACCTGTCAGCACCCCATCACTTGCCAGAAATGGACACAGATGTACCACGTTCCAGGCCAAAAGATACTAAACGAAAGGTACACAGAGCAAACACTTCTCACTCCACAGTTGGAACTGAAGGTCTTCAGTTAAGTTCTCAGTTACTGTCAGACCTTAAACGTGCCTCGACCATCAACAAAACGTACAGAATGAGGTACTCTGCAACTGAGGAAGAACTATTACAGTCTTTAAGCACTTCTCACATCGTTCCTGCACAAGATCCTTGTCCTCCTGGTGGTAGTACAGATAACACTTTGATGCCATCACTGAGTGCGGCATTACACTCAGCAGGAGACGAGTATCACTTTAACATCCAATAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6PCX9	E3 ubiquitin-protein ligase TRIM37 OS=Mus musculus OX=10090 GN=Trim37 PE=1 SV=1
O94972	E3 ubiquitin-protein ligase TRIM37 OS=Homo sapiens OX=9606 GN=TRIM37 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003976 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00643 all species →	zf-B_box	B-box zinc finger	Domain	Interproscan
PF00917 all species →	MATH	MATH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002083 all species →	Domain	MATH/TRAF domain	Interproscan
IPR000315 all species →	Domain	B-box-type zinc finger	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR037299 all species →	Domain	TRIM37, MATH domain	Interproscan
IPR053003 all species →	Family	TRIM/RBCC E3 ubiquitin-protein ligases	Interproscan
IPR003649 all species →	Domain	B-box, C-terminal	Interproscan
IPR008974 all species →	Homologous_superfamily	TRAF-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR36754 all species →	E3 UBIQUITIN-PROTEIN LIGASE TRIM37	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0016567 all species →	Biological Process	protein ubiquitination	Interproscan
GO:0005164 all species →	Molecular Function	tumor necrosis factor receptor binding	Interproscan
GO:0005777 all species →	Cellular Component	peroxisome	Interproscan
GO:0016235 all species →	Cellular Component	aggresome	Interproscan
GO:0031625 all species →	Molecular Function	ubiquitin protein ligase binding	Interproscan
GO:0032088 all species →	Biological Process	negative regulation of NF-kappaB transcription factor activity	Interproscan
GO:0046600 all species →	Biological Process	negative regulation of centriole replication	Interproscan
GO:0051092 all species →	Biological Process	positive regulation of NF-kappaB transcription factor activity	Interproscan
GO:0051865 all species →	Biological Process	protein autoubiquitination	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase 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
K10608	TRIM37, MUL; tripartite motif-containing protein 37	EC:2.3.2.27	Ubiquitin system	ko04121	deepkoala

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.Ap3.1219 across 49 RNA-seq samples of Astrangia poculata. 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.

49Samples

0TPM > 0

4Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole organism · cold control	14	0	0.00	0.00
whole organism · heat control	12	0	0.00	0.00
whole organism · cold challenge	12	0	0.00	0.00
whole organism · heat challenge	11	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
SRR10674714	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674715	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674724	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674733	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674734	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674735	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674736	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674737	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674739	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674743	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674746	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674747	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674748	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674750	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674706	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674707	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674708	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674717	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674718	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674720	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674721	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674725	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674731	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674741	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674752	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674753	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674711	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674712	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674713	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674722	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674723	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674730	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674732	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674738	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674740	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674744	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674745	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674749	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674709	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674710	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674716	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674719	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674726	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674727	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674728	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674729	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674742	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674751	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674754	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293

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.