Gene detail

Detailed information of CAB4001562.1 in Paramuricea clavata

Genomic Location: pcla8_s004199:977...3743
NR annotation: CAB4001562.1, Hypothetical predicted protein [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

PACLA_8A034182

ATGGAAGGCGCCGTAAACAACAGCTGTGTGGCTAGCGAAACGGAAGACGAATCGATATTCGCTGGCGTTATTTTCCACAACGTTCAAGACACATACATACCCGGAAAGGACATACGTTGTTGTTATTCAATCAAACCGTCTGTTTCGACGACGGCAAACGACTGGATAGGGCTGTACAAAGTCGGTTGGCAGTCCCCGAAGGAGTATTTGTGCTATGAATATTCGCCGGTCCTCGAAAGTATTTCGCTAACTGCCTCGCTGTCTATTCAAAATTATGTTGTATTTCGCGGTAGCAAATTGCCCTCGGAGGAATGCGAATTCTACCAGTTTTGTTATGTGACGAGCAGCGGCGAAATTCGCGGTGCCAGTTATCCGTTCCAGATCAGTTTTACGAAGCCAGGCGAACTGGAAATATGCAGCGAGGAAGGTGACGAAAGCTTGCTGATTGTGAACAATCGTACGACCCTGCTCGAAGATTCTCTCGCGAAAACCTACAACGCGAATGCCGAATTGAAAGCTTCGAAAGAGAAAATCGAGGCGGATTGCTTGAATCTTCAGGATATGATTCTGAAGCTGGAAGCAAAAAAGGCCGACGTGGACTCCCGGAATGAAAAACAGAAAAAGATGCTGGAAAAAGCAATGTCGGAGAAAACCCATTTCGAAGAATCATATAAGGAGACACTCGAACTGTTCAATACCTCCCAGACTGCCTTGAAACTAGCCAATGAGAAAACAGCAGAAGTTCAAGAGCAGTTGGCTAATGAAAGAATTCAGCATGTACGAACAAGTTCGGAACAGCAGAAGTTTGAAGAAGAGAAGTGTCGTTTCATGGAAGTGATTGCTCACAAAGACGGCATCATCCAAGGCTTTCTTGGCACCATTGAAGAGAATAGTGGCAAGACAGCTGCTTTGGAAAGCGAGATTCAGAAACTGAAATTTGAAAAAGCCACCCTGCAGGAAAATTTTGATAACCTTGTTGTCGAGAAGGCGAAGAGTGATGATTCGTTGAAAAAATCGGAACAAGCGTATGATGCCTTGGAAAAATCCCAGGCTGAAAACTTTGAACAAGTTTACAAATTACAAGCTGAGAATTCAAAGATGAAAGAGGAATCAGCCGTCGTTCGGGAGCGATTGGAAGAGATGTCAGATTGGTTCAGCAATCAACAGGCGTCTATGGAACAAAAACACTTGAACGAATGTTGTGATCTCGAGAACAAAATTGAAACTATCACATCGCAGTTGGATGGTGCCAAACAGGAGTTGGCTCTTGGCAAGGAGAAGCTTGACGAAGCTATTTCAGTGCTTGATAAGGAGCGAAAAGCCAGCCGAGAAATCGTCGAAGGGTACGAAGGTTCCATTCTAAAAATGCAAGAGCAGCTGAACCAAGAGAGAGCATTCAATAAGTCGTTGAGTTCTGCATCTGATAGCCAAGTCGCAGAACTTCAAGAACAGTTAAATGCCCAATTGCAGAAGAATTCTTCAGCTTTGAAACAGACCGAAGACCAGAGTCAAGAAATAAAACGTCTGGAAGAGATTGTAAAATTGAACAAGGCGGAAATTGAAAGAATGCAAAATGAAATTGAGGAACGAGAACAGCAACTGGACTCGATCGAAAAGCAGGAGAAGGAAAGTTTACAGTCAACTGCATCCAATAGTGGCAATACTGAAAAGAATGCTGCTTTGGAGGGGTCGTATTTCGCCTTGAAAACAGCTCATGAGCAACTGAGAAAGCAGTATCTACAAGCGAAGGAAGATATGAAGAATCTTTGGAGACAAAAGGGTGATCTGAAGCGACAACTGGAGACAGTGCAATCAGAGCTGCCCGATTCCTACCTGCGGTTGCAAATGGCAAACTTGAAAAAGCAGATTGAAGATCTTCGTATTCGATTGAATATGGGAGCCGAAGCATACAAATCGAAGTTTAAAGAATGCCAGAAGTATGAAAAGCAACTCAAGAAGGTGCAAAAAGATTCCAACAATCCTTCAAACCCAGAAAGTCCGTCATCCACGGTCGAGTTTGAGATGAGAAATCTTCAACAGTCACTTGAGAACGAGAAAACAACTTCAGCAGCCTTGAAGAAATCTTTGGAGAACTACAAGAGAGATGCACATGAAGTAAAAGAAGAGCTGTCAAAGGTACAGTAA

Transcript

rna-PACLA_8A034182

CCTGAACTTGATGTGTGCTATGTGATGGCAGATTCGATcctgactcattttgtgctgaCTATGTCTATACATATCGAATGACAGTATATAGACATAGTCAGCACAAAATTTGTGATTTCACCGCAAATAATCTGAAATGAATGGCAAATGGAAATGCATTGGAACCAGCCAGTACATCAGAGCATAACAAAACATAAATTTATCACGTAACGTTTATGTTTGGTAACTTGGGTTTTAGTTCACTATTATTAGTATTAGCGAAAACGGCagggtaataaaaaataatgACTTTCGATACAGAATAAGGAAACGAACTGTGCAAACGCGCTCAAAACCGCACGATCGGTATCAGCCGGTCAGTGAGTGCATTTGATTTGGCTAGTCATCGCTGAGTCAGCAAATTTATAATCCATAATTATATCCCATGCTGCTTTGTGGCATATGTTTACAATTATAATCGTCATTGCCTGAAAATGAAAGTTGTCGTAATCGGACCAAAATTACGGTTGAAATAATCACGGATTTGTCGAGTTTTAGTTTATCACATTGAAAACCCACCGAAGACAAGAGACCACAAAACCTTTGCAATGGAAGGCGCCGTAAACAACAGCTGTGTGGCTAGCGAAACGGAAGACGAATCGATATTCGCTGGCGTTATTTTCCACAACGTTCAAGACACATACATACCCGGAAAGGACATACGTTGTTGTTATTCAATCAAACCGTCTGTTTCGACGACGGCAAACGACTGGATAGGGCTGTACAAAGTCGGTTGGCAGTCCCCGAAGGAGTATTTGTGCTATGAATATTCGCCGGTCCTCGAAAGTATTTCGCTAACTGCCTCGCTGTCTATTCAAAATTATGTTGTATTTCGCGGTAGCAAATTGCCCTCGGAGGAATGCGAATTCTACCAGTTTTGTTATGTGACGAGCAGCGGCGAAATTCGCGGTGCCAGTTATCCGTTCCAGATCAGTTTTACGAAGCCAGGCGAACTGGAAATATGCAGCGAGGAAGGTGACGAAAGCTTGCTGATTGTGAACAATCGTACGACCCTGCTCGAAGATTCTCTCGCGAAAACCTACAACGCGAATGCCGAATTGAAAGCTTCGAAAGAGAAAATCGAGGCGGATTGCTTGAATCTTCAGGATATGATTCTGAAGCTGGAAGCAAAAAAGGCCGACGTGGACTCCCGGaatgaaaaacagaaaaagatgCTGGAAAAAGCAATGTCGGAGAAAACCCATTTCGAAGAATCATATAAGGAGACACTCGAACTGTTCAATACCTCCCAGACTGCCTTGAAACTAGCCAATGAGAAAACAGCAGAAGTTCAAGAGCAGTTGGCTAATGAAAGAATTCAGCATGTACGAACAAGTTCGGAACAGCAGAAGTTTGAAGAAGAGAAGTGTCGTTTCATGGAAGTGATTGCTCACAAAGACGGCATCATCCAAGGCTTTCTTGGCACCATTGAAGAGAATAGTGGCAAGACAGCTGCTTTGGAAAGCGAGATTCagaaactgaaatttgaaaaagccaCCCtgcaggaaaattttgataacCTTGTTGTCGAGAAGGCGAAGAGTGATGATTCGTTGAAAAAATCGGAACAAGCGTATGATGCCTTGGAAAAATCCCAGGCTGAAAACTTTGAACAAGTTTACAAATTACAAGCTGAGAATTCAAAGATGAAAGAGGAATCAGCCGTCGTTCGGGAGCGATTGGAAGAGATGTCAGATTGGTTCAGCAATCAACAGGCGTCTATGGAACAAAAACACTTGAACGAATGTTGTGATCTCGAGAACAAAATTGAAACTATCACATCGCAGTTGGATGGTGCCAAACAGGAGTTGGCTCTTGGCAAGGAGAAGCTTGACGAAGCTATTTCAGTGCTTGATAAGGAGCGAAAAGCCAGCCGAGAAATCGTCGAAGGGTACGAAGGTTCCATTCTAAAAATGCAAGAGCAGCTGAACCAAGAGAGAGCATTCAATAAGTCGTTGAGTTCTGCATCTGATAGCCAAGTCGCAGAACTTCAAGAACAGTTAAATGCCCAATTGCAGAAGAATTCTTCAGCTTTGAAACAGACCGAAGACCAGAGTCAAGAAATAAAACGTCTGGAAGAGATTGTAAAATTGAACAAGGCGGAAATTGAAAGAATGCAAAATGAAATTGAGGAACGAGAACAGCAACTGGACTCGATCGAAAAGCAGGAGAAGGAAAGTTTACAGTCAACTGCATCCAATAGTGGCAATACTGAAAAGAATGCTGCTTTGGAGGGGTCGTATTTCGCCTTGAAAACAGCTCATGAGCAACTGAGAAAGCAGTATCTACAAGCGAAGGAAGATATGAAGAATCTTTGGAGACAAAAGGGTGATCTGAAGCGACAACTGGAGACAGTGCAATCAGAGCTGCCCGATTCCTACCTGCGGTTGCAAATGGCAAACTTGAAAAAGCAGATTGAAGATCTTCGTATTCGATTGAATATGGGAGCCGAAGCATACAAATCGAAGTTTAAAGAATGCCAGAAGTATGAAAAGCAACTCAAGAAGGTGCAAAAAGATTCCAACAATCCTTCAAACCCAGAAAGTCCGTCATCCACGGTCGAGTTTGAGATGAGAAATCTTCAACAGTCACTTGAGAACGAGAAAACAACTTCAGCAGCCTTGAAGAAATCTTTGGAGAACTACAAGAGAGATGCACATGAAGTAAAAGAAGAGCTGTCAAAGGTACAGTAAAATGCTTTTATAACTATTACAAACAAATCGAGTTG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q66HA4	Tax1-binding protein 1 homolog OS=Rattus norvegicus OX=10116 GN=Tax1bp1 PE=2 SV=1
Q6P3P1	Tax1-binding protein 1 homolog OS=Xenopus tropicalis OX=8364 GN=tax1bp1 PE=2 SV=1
Q3UKC1	Tax1-binding protein 1 homolog OS=Mus musculus OX=10090 GN=Tax1bp1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006848 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17751 all species →	SKICH	SKICH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051002 all species →	Family	Ubiquitin-binding and autophagy-associated domain-containing protein	Interproscan
IPR041611 all species →	Domain	SKICH domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31915 all species →	SKICH DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

No Gene Ontology signature was detected for CAB4001562.1. This gene does have a gene model — the search simply returned no hit.

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 CAB4001562.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4001562.1 across 21 RNA-seq samples of Paramuricea clavata. 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.

21Samples

15TPM > 0

4Conditions

22.8Max TPM

10.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	5	14.14	22.81
apical branchlet · Temperature treatment at T0	6	3	4.38	9.52
apical branchlet · Temperature treatment at T25	5	3	10.18	19.15
apical branchlet · Control at T0	4	4	16.07	22.71

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	22.81
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	21.60
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	16.54
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	12.18
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	11.71
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	9.52
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	8.73
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	8.02
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	19.15
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	18.37
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	13.38
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	22.71
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	19.86
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	17.20
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	4.53

Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM, StringTie quantification over 21 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.