Gene detail

Detailed information of g2541.t2 in Acropora digitifera

Genomic Location: chr2Alt:1433682...1445499
NR annotation: XP_044171929.1, TNF receptor-associated factor 1-like [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g2541.t2

ATGTCCCCACGCAAAGTGACCTCCTTATTGGCCCTCCGCTGTCAAGAAGGTACCACTGGCTCAGCAATCTTCTGGTGCTGCAGAGAGAGTTTTTGGCATACTCTTAGCCTCACGCATTCAGGACCTGGGACCACGGACTGTGGACTGAATCTTGATCCAACGACGAAATTACAACACTTCTCTGAAAGGTACTTCAAACTGGATCAGCATCGACAACAGAGGAGAGAAAGATCTGTCGACCCATCTGTCGTTATTGTAGCGTTCTACTTCATCAAACTGTTATTGATTAGAGAGATGCCTGGTTTCCCACTGTTAAGAAGTGATTTGGAGAAAATTCCATCTAAATACAAATGCGAGTTCTGCGAGAACGTTGTTCGTGATCCCATGCAAACACCTTGCGCTCATTTTTATTGCAGAGATTGCTTAGAACATCTCAAAAGCGATGACGAGGATGATTTGTACGAATGCAAAGCTGACGGTGAAAAATTCAAACGCTTGGAGGTATTTCCCGATGGATGTGTAAGAAAGGAAATCAACGAATTAACAGTTCACTGCCTTTACAAAGAAAGCGGTTGTGAATGGTTTGATAAGATAACCGGCCTGAGTGAACATGCATCAGGTTGTGACTTCGTGGAGATACCGTGTGTCTTCGAAAAATGCAATGCCAAAGTTCTCAGGTCCAAATTGGCGCAACATCTGCAATCAGAATGCAGCCAAAGACAAATTGAATGCGATTATTGCCGTCAGGAAATGCCTTTTGCTGATTTGAAGGACCATGTTAGCAAGGAATGCCAAAATTTTCCTATTGACTGTACCTTGTGCGACAAAAAGGGAATTCCTCGGGGAAAGCTACGAGAGCACCACGATCCAGTTGTTGGAGAATGTGAAGGATCTCAAGCAGTTTGCCCTTTCCTCTCCATGGGCTGCGCATCCAGAGAAGTGATGAGACGTAGTGAGAGACGAGCCCACGAGGAAAATCTAATGGCATTCCATTTGAACCTTCTCGTCTGCTTTATCTACAATCTAAAGGACCAAGTGGGAAGTCTTTTCAACGACCTGAGCCCTGTTAAAGAGAGTGTTATGGTCATACAGGTATTGAAATCGACAGTCTCTCGGCTTGTGTCTCAAGTGGCAGCTATTGTGAACGATAATCGTAAAACCAGAGAGGAAGTCTACCGATTAACATCACGATTGGCACAAATTGAAGAAGAATTAGTGGAACCAGATTCCATGCCAATCACGCAACGTCACTCACTACAGGTTCACTATCAACAAATCATCGAAAAGCTGGCTGAATTCAAACGTCAGCTAAGCAGAATGGAAGAAAAATTTGCAAGTCATGAACTTCTTCTTTATGAAACAAATCAACTGAACGAGGAACAGAGCGTTGAAATTGCCAGGTTAAAGAGGCAGGGAGAAAGCGACAGAGAAGCTTTAAGTAAACTCACCGAAAAACTCGATTCCCTCAAGGAAAGTTCGAAACAACGAAACGCTCCCGCTGTGGACAATTTAAGTCCACCAAGATACCAAGAGCCTACCAGCTTTGATGCTGTTTTGATTTGGAAGATAACGCATGTTTCTGCAAAGATTAACAACTCTTATGACGAGCCTGAGAAATCCATCTACAGCCCTCCCTTTTGTACCAGTCGTCATGGATACAAAATGTGCGCACGCATCTATTTGAATGGTGACGGAATGGGCAAGGGTACGCACATATCTTTGTTCTTTGTTATCATGCGGGGTGAGTATGACGCTCTACTCCGCTGGCCATTCAGACAGAAGGTGACCTTCATGCTGTTGGATCAAGAGAATGTGGAACACGTGATAGATGCATTCAGGCCTGATCCAAACAGCTCATCATTCCAGAGACCACGAAGAGAAGCAAATATCGCCAGTGGGTGCCCGCTGTTTTTTCCTATTTCGGATCTTAACAAACATGCTTACATTAAGGATGATACCATGTTTGTTAAGGTAATAGTTGACTGTGCAGACCTGTAA

Transcript

chr2Alt.g2541.t2

AAGCTATTTTCGCAGATCCAGAGAGCCTTGCCAATTTCAAGCTCGAGCTGGCTTCCATTATTGACGTCGGACGAGTATTTTGACCAAAGGCAACCTACGATTTTGAAGGTGAAGGTCCTCTTGTGCTTTTTTACAACAAACGGTTGGAAGTTGTTGGATCCACATTTGCCTAATGCACATACGGTTGCTGTTGCAATAACTAATTAAGATGCTACATAGGTCGCGGCGACTCTTGAACAGACGGCAAAAAGCGTATGTACAGCCAGCTGTACAGTGCATGGTTCTTGCGGAAGTTTAATGTAGAACTTTATGACACAGTCGACCTTCAAAGCTGCTAAACTCATGTCCCCACGCAAAGTGACCTCCTTATTGGCCCTCCGCTGTCAAGAAGGTACCACTGGCTCAGCAATCTTCTGGTGCTGCAGAGAGAGTTTTTGGCATACTCTTAGCCTCACGCATTCAGGACCTGGGACCACGGACTGTGGACTGAATCTTGATCCAACGACGAAATTACAACACTTCTCTGAAAGGTACTTCAAACTGGATCAGCATCGACAACAGAGGAGAGAAAGATCTGTCGACCCATCTGTCGTTATTGTAGCGTTCTACTTCATCAAACTGTTATTGATTAGAGAGATGCCTGGTTTCCCACTGTTAAGAAGTGATTTGGAGAAAATTCCATCTAAATACAAATGCGAGTTCTGCGAGAACGTTGTTCGTGATCCCATGCAAACACCTTGCGCTCATTTTTATTGCAGAGATTGCTTAGAACATCTCAAAAGCGATGACGAGGATGATTTGTACGAATGCAAAGCTGACGGTGAAAAATTCAAACGCTTGGAGGTATTTCCCGATGGATGTGTAAGAAAGGAAATCAACGAATTAACAGTTCACTGCCTTTACAAAGAAAGCGGTTGTGAATGGTTTGATAAGATAACCGGCCTGAGTGAACATGCATCAGGTTGTGACTTCGTGGAGATACCGTGTGTCTTCGAAAAATGCAATGCCAAAGTTCTCAGGTCCAAATTGGCGCAACATCTGCAATCAGAATGCAGCCAAAGACAAATTGAATGCGATTATTGCCGTCAGGAAATGCCTTTTGCTGATTTGAAGGACCATGTTAGCAAGGAATGCCAAAATTTTCCTATTGACTGTACCTTGTGCGACAAAAAGGGAATTCCTCGGGGAAAGCTACGAGAGCACCACGATCCAGTTGTTGGAGAATGTGAAGGATCTCAAGCAGTTTGCCCTTTCCTCTCCATGGGCTGCGCATCCAGAGAAGTGATGAGACGTAGTGAGAGACGAGCCCACGAGGAAAATCTAATGGCATTCCATTTGAACCTTCTCGTCTGCTTTATCTACAATCTAAAGGACCAAGTGGGAAGTCTTTTCAACGACCTGAGCCCTGTTAAAGAGAGTGTTATGGTCATACAGGTATTGAAATCGACAGTCTCTCGGCTTGTGTCTCAAGTGGCAGCTATTGTGAACGATAATCGTAAAACCAGAGAGGAAGTCTACCGATTAACATCACGATTGGCACAAATTGAAGAAGAATTAGTGGAACCAGATTCCATGCCAATCACGCAACGTCACTCACTACAGGTTCACTATCAACAAATCATCGAAAAGCTGGCTGAATTCAAACGTCAGCTAAGCAGAATGGAAGAAAAATTTGCAAGTCATGAACTTCTTCTTTATGAAACAAATCAACTGAACGAGGAACAGAGCGTTGAAATTGCCAGGTTAAAGAGGCAGGGAGAAAGCGACAGAGAAGCTTTAAGTAAACTCACCGAAAAACTCGATTCCCTCAAGGAAAGTTCGAAACAACGAAACGCTCCCGCTGTGGACAATTTAAGTCCACCAAGATACCAAGAGCCTACCAGCTTTGATGCTGTTTTGATTTGGAAGATAACGCATGTTTCTGCAAAGATTAACAACTCTTATGACGAGCCTGAGAAATCCATCTACAGCCCTCCCTTTTGTACCAGTCGTCATGGATACAAAATGTGCGCACGCATCTATTTGAATGGTGACGGAATGGGCAAGGGTACGCACATATCTTTGTTCTTTGTTATCATGCGGGGTGAGTATGACGCTCTACTCCGCTGGCCATTCAGACAGAAGGTGACCTTCATGCTGTTGGATCAAGAGAATGTGGAACACGTGATAGATGCATTCAGGCCTGATCCAAACAGCTCATCATTCCAGAGACCACGAAGAGAAGCAAATATCGCCAGTGGGTGCCCGCTGTTTTTTCCTATTTCGGATCTTAACAAACATGCTTACATTAAGGATGATACCATGTTTGTTAAGGTAATAGTTGACTGTGCAGACCTGTAATCTCAAGTCCTTTTACTCTATACCTCGGTTAGTACGCGTGCTGTGATTGGCCAATTTTTCGTGCCGTATTATACTGTACGGCCCGCTACGCTAGTTTCCATTCTTTCCTTGCGCACCTGTTAAACCTCAGAGAAAAAATAAACATATTACTAGCCT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P70191	TNF receptor-associated factor 5 OS=Mus musculus OX=10090 GN=Traf5 PE=1 SV=1
O00463	TNF receptor-associated factor 5 OS=Homo sapiens OX=9606 GN=TRAF5 PE=1 SV=2
Q60803	TNF receptor-associated factor 3 OS=Mus musculus OX=10090 GN=Traf3 PE=1 SV=2

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00097 all species →	zf-C3HC4	Zinc finger, C3HC4 type (RING finger)	Domain	Interproscan
PF21355 all species →	TRAF-mep_MATH	TRAF/meprin, MATH domain	Domain	Interproscan
PF02176 all species →	zf-TRAF	TRAF-type zinc finger	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR018957 all species →	Domain	Zinc finger, C3HC4 RING-type	Interproscan
IPR002083 all species →	Domain	MATH/TRAF domain	Interproscan
IPR008974 all species →	Homologous_superfamily	TRAF-like	Interproscan
IPR012227 all species →	Family	TNF receptor-associated factor TRAF, metazoa	Interproscan
IPR049342 all species →	Domain	TRAF1-6/MEP1A/B-like, MATH domain	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR001293 all species →	Domain	Zinc finger, TRAF-type	Interproscan
IPR017907 all species →	Conserved_site	Zinc finger, RING-type, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10131 all species →	TNF RECEPTOR ASSOCIATED FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0042981 all species →	Biological Process	regulation of apoptotic process	Interproscan
GO:0005164 all species →	Molecular Function	tumor necrosis factor receptor binding	Interproscan
GO:0009898 all species →	Cellular Component	cytoplasmic side of plasma membrane	Interproscan
GO:0033209 all species →	Biological Process	tumor necrosis factor-mediated signaling pathway	Interproscan
GO:0070534 all species →	Biological Process	protein K63-linked ubiquitination	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 g2541.t2.

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

Expression pattern (RNA-seq)

Transcript abundance of g2541.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.