Gene detail

Detailed information of g27813.t1 in Montipora capitata

Genomic Location: xfSc0000060:112951...147219
NR annotation: XP_029184588.2, E3 ubiquitin-protein ligase TRIM37-like isoform X1 [Acropora millepora]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g27813.t1

atgattataattattcacaacattcgtcgcaagtggagatgtgatattcatcatgaaaaactcagtgtgttttgtagcacctgcaagcagtgcatctgccatcagtgtgccttgtggggtgggacacactctggccatacattcaagcctctggatgaagtttatgatcaacacgtgtcctccattacagatgaggttgcagccttgagacgaagattgatggaactcattagtcttgttcaggaagtggaacgtaatgttgaaagcttgcgagaagctaaagaagagcgtgttcgtgagattcgtaatgcagttgaattgatgatagctcgcttggatactcaactgaagagtaaactactcactctaatgggacagaaaaattccctgactcaagaaacagaattgctggaatccttgctgcaggaagtggaacatcagttgcactcttgttccagaagtgaactaattgccaagagtggtgaacttttgcagatgtttaaccaggttcatcggaagccaatggcttcatttgtcagtcctcctattccggctgatttttcaagtgaaattgtgccagcatatgacacaagcacattttgtatcacaaattttagcttacttcggcgcaaggcagatcctgtgtacagtgaaccattaaatgtcagtgggctaagttggagactcaaagtttatcctgatggtaatggtgtagtcagaggtaactacctttctgtcttcctggagctttcagcaggactgcctgagacatccaaatatgaataccgtgtggaaatgatacaccatgcttcccctgattcaagcaagaatattgtgcgggagtttgcatcggactttgaagttggtgaatgttggggttacaataggtttttccgtttggatctcttggcaaatgagggctacttgaatacagccaatgatacccttattctacggtttcaagtcagacctccaactttttatcaaaagtgcagagatcaacagtggtacataaatcagttagagactggacaaagtcagtatatacaacagataaatgacttgaaagagcgacttgccattgaactgtcgaggaatcacccgcccactgtagcagccgcagcggcgacagctgctgcagcagcagcagcagcaacctctgggaatgcgccagacgtgggtcatgtgtcactactggaacagtcattggacagcatggaagatgataatgatcacatggtcactaagcaacaaggcgactttgcagcagtgacacggcagggaggggctctcaggccacgtgctacgatacacactgcgctggatgtggaaacggcatcaggtcccattcttcctgcttcagaagagggcgaggaggatgttgtggaaggagacgccaatgaagaagacgaaaatggcgataatgatgatgatgatgatgaggaggaggaaaatgaagcggaaagtggggctgacagtggtgacgaagaggctcaggagaggggtgaagccgaagaggacttgtctgaaccagaggaaaacgaggaggaatcactgagagatgagacgctagaggaagagactttgcgggatcttttgccttgccccgagagtccacaggaagagcagccagcgcagcccgaccaggatgcctggagtgtggaggatgtccaacttgaattttttgacatcagctgcatgcctgagcagcgtgaggagttgggacgcaagcaggaggtttcctcccaaacgggctgtgcaaactgtctccccgctaaccaagcaccagttattgatgcagaggaaagagcgttattaaatcttctcaagttcgacaaccgggtccctcgaggatctcgttggaatgcgcctggcgtgtccaggagatatgttacactggttgagtggccaaagcgtgtggaggaagagaaggacagacacaaatataaaaagagagcacggatggataaaactagcagcatgctggaaagactgcaaagccgtttaaaccgcgcagaggtgcaaaaagcagctgctgcgtctttggatagtgccaaggccttggaagagtctttgtcgaatggtgttcaaaccaagatgccgagatcaggtaacgtcagaccacagcgtagagctgcacctattctgagcatagattccagtgatcctggaaaaattctccaccctccgaagaaagcaggaccaaacggagcagcttgtagcacagcccctgatcatgatgttggacgcgggagtcctgaactagatctgtcagcacctcatcatttaccagagatggacacggaaaccccacgcacgcggtgtaaggataccaaacgcaaagtacatcgcaccagtaccggtccctcttccgtggggagtgaaggtcttcaactaacttcccagttactatccgatctgaaacgtgcctccgccatcaataagacttacagaatgaggtactcagccaccgaggaggaacttctacagtctctaagcagcgcccctcccgatcaagtcggcagtaaaaatgacgttgcgacagttgatgacgtaataccttcctttggttcattgcctggttccactggagacgagtatcacttggtgcacataagtgcggatgaactcagcgacaactcgtcctctacccctcccccaacgacgatgatccgaaaaagaaactcacccactaggagcaacgagagtggagaatctgaagatagccccacaggaagcccagatatcaccagtcctccactgaagaacggtagcagagaggacgacacaggagtggttgacaattaa

Transcript

g27813.t1

ATGATTATAATTATTCACAACATTCGTCGCAAGTGGAGATGTGATATTCATCATGAAAAACTCAGTGTGTTTTGTAGCACCTGCAAGCAGTGCATCTGCCATCAGTGTGCCTTGTGGGGTGGGACAcaCTCTGGCCATACATTCAAGCCTCTGGATGAAGTTTATGATCAACACGTGTCCTCCATTACAGATGAGGTTGCAGCCTTGAGACGAAGATTGATGGAACTCATTAGTCTTGTTCAGGAAGTGGAACGTAATGTTGAAAGCTTGCGAGAAGCTAAAGAAGAGCGTGTTCGTGAGATTCGTAATGCAGTTGAATTGATGATAGCTCGCTTGGATACTCAACTGAAGAGTAAACTACTCACTCTAATGGGACAGAAAAATTCCCTGACTCAAGAAACAGAATTGCTGGAATCCTTGCTGCAGGAAGTGGAACATCAGTTGCACTCTTGTTCCAGAAGTGAACTAATTGCCAAGAGTGGTGAACTTTTGCAGATGTTTAACCAGGTTCATCGGAAGCCAATGGCTTCATTTGTCAGTCCTCCTATTCCGGCTGATTTTTCAAGTGAAATTGTGCCAGCATATGACACAAGCACATTTTGTATCACAAATTTTAGCTTACTTCGGCGCAAGGCAGATCCTGTGTACAGTGAACCATTAAATGTCAGTGGGCTAAGTTGGAGACTCAAAGTTTATCCTGATGGTAATGGTGTAGTCAGAGGTAACTACCTTTCTGTCTTCCTGGAGCTTTCAGCAGGACTGCCTGAGACATCCAAATATGAATACCGTGTGGAAATGATACACCATGCTTCCCCTGATTCAAGCAAGAATATTGTGCGGGAGTTTGcATCGGACTTTGAAGTTGGTGAATGTTGGGGTTACAATAGGTTTTTCCGTTTGGATCTCTTGgcAAATGAGGGCTACTTGAATACAGCCAATGATACCCTTATTCTACGGTTTCAAGTCAGACCTCCAACTTTTTATCAAAAGTGCAGAGATCAACAGTGGTACATAAATCAGTTAGAGACTGGACAAAGTCAGTATATACAACAGATAAATGACTTGAAAGAGCGACTTGCCATTGAACTGTCGAGGAATCACCCGCCCACTGTAGCAGCCGCAGCGGCGACAGCTGctgcagcagcagcagcagcaaccTCTGGGAATGCGCCAGACGTGGGTCATGTGTCACTACTGGAACAGTCATTGGACAGCATGGAAGATGATAATGATCACATGGTCACTAAGCAACAAGGCGACTTTGCAGCAGTGACACGGCAGGGAGGGGCTCTCAGGCCACGTGCTACGATACACACTGCGCTGGATGTGGAAACGGCATCAGGTCCCATTCTTCCTGCTTCAGAAGAGGGCGAGGAGGATGTTGTGGAAGGAGACGCCAATGAAGAAGACGAAAATggcgataatgatgatgatgatgatgaggaggaggaaAATGAAGCGGAAAGTGGGGCTGACAGTGGTGACGAAGAGGCTCAGGAGAGGGGTGAAGCCGAAGAGGACTTGTCTGAACCAGAGGAAAACGAGGAGGAATCACTGAGAGATGAGACGCTAGAGGAAGAGACTTTGCGGGATCTTTTGCCTTGCCCCGAGAGTCCACAGGAAGAGCAGCCAGCGCAGCCCGACCAGGATGCCTGGAGTGTGGAGGATGTCCAACTTGAATTTTTTGACATCAGCTGCATGCCTGAGCAGCGTGAGGAGTTGGGACGCAAGCAGGAGGTTTCCTCCCAAACGGGCTGTGCAAACTGTCTCCCCGCTAACCAAGCACCAGTTATTGATGCAGAGGAAAGAGCGTTATTAAATCTTCTCAAGTTCGACAACCGGGTCCCTCGAGGATCTCGTTGGAATGCGCCTGGCGTGTCCAGGAGATATGTTACACTGGTTGAGTGGCCAAAGCGTGTGGAGGAAGAGAAGGACAGACACAAATATAAAAAGAGAGCACGGATGGATAAAACTAGCAGCATGCTGGAAAGACTGCAAAGCCGTTTAAACCGCGCAGAGGTGCAAAAAGCAGCTGCTGCGTCTTTGGATAGTGCCAAGGCCTTGGAAGAGTCTTTGTCGAATGGTGTTCAAACCAAGATGCCGAGATCAGGTAACGTCAGACCACAGCGTAGAGCTGCACCTATTCTGAGCATAGATTCCAGTGATCCTGGAAAAATTCTCCACCCTCCGAAGAAAGCAGGACCAAACGGAGCAGCTTGTAGCACAGCCCCTGATCATGATGTTGGACGCGGGAGTCCTGAACTAGATCTGTCAGCACCTCATCATTTACCAGAGATGGACACGGAAACCCCACGCACGCGGTGTAAGGATACCAAACGCAAAGTACATCGCACCAGTACCGGTCCCTCTTCCGTGGGGAGTGAAGGTCTTCAACTAACTTCCCAGTTACTATCCGATCTGAAACGTGCCTCCGCCATCAATAAGACTTACAGAATGAGGTACTCAGCCACCGAGGAGGAACTTCTACAGTCTCTAAGCAGCGCCCCTCCCGATCAAGTCGGCAGTAAAAATGACGTTGCGACAGTTGATGACGTAATACCTTCCTTTGGTTCATTGCCTGGTTCCACTGGAGACGAGTATCACTTGGTGCACATAAGTGCGGATGAACTCAGCGACAACTCGTCCTCTACCCCTCCCCCAACGACGATGATCCGAAAAAGAAACTCACCCACTAGGAGCAACGAGAGTGGAGAATCTGAAGATAGCCCCACAGGAAGCCCAGaTATCACCAGTCCTCCACTGAAGAACGGTAGCAGAGAGGACGACACAGGAGTGGTTGACAATTAA

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)	OG0003743 (this species only) · gene tree & orthology

Pfam domain

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

InterPro

InterPro term	Type	Description	Source
IPR003649 all species →	Domain	B-box, C-terminal	Interproscan
IPR002083 all species →	Domain	MATH/TRAF domain	Interproscan
IPR000315 all species →	Domain	B-box-type zinc finger	Interproscan
IPR008974 all species →	Homologous_superfamily	TRAF-like	Interproscan
IPR037299 all species →	Domain	TRIM37, MATH domain	Interproscan
IPR053003 all species →	Family	TRIM/RBCC E3 ubiquitin-protein ligases	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 g27813.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

48TPM > 0

3Conditions

82.1Max TPM

38.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	37.41	70.61
whole organisms · low pH treatment	15	15	40.38	82.12
whole organisms · extra low pH treatment pH treatment	12	12	38.37	63.51

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	70.61
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	66.79
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	64.54
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	63.19
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	59.36
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	44.77
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	44.40
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	43.56
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	42.36
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	39.36
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	39.25
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	31.60
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	31.25
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	30.90
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	30.25
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	27.01
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	19.09
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	15.54
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	8.71
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	7.49
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	5.61
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	82.12
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	77.87
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	67.38
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	66.09
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	55.08
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	48.21
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	42.09
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	38.84
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	28.72
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	25.16
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	24.46
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	23.38
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	10.32
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	8.17
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	7.80
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	63.51
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	53.77
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	53.11
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	51.46
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	47.96
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	46.67
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	38.80
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	32.85
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	29.26
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	28.79
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	7.83
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	6.38

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.