Gene detail

Detailed information of CAB3981949.1 in Paramuricea clavata

Genomic Location: pcla8_s000469:72629...76654
NR annotation: CAB3981949.1, tetratricopeptide repeat 28-like [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

PACLA_8A029121

ATGGCAAGCAACAATGCAAAATTGGGTAACGCCTATCATATGTTAGGAGAACATCAGAATGCCATTGACTATCACAACACAAATCTTGAAATAAGCACTGCTATTGGCGACAGACTAGGAATAGCAAGAAGCAACAGCAATTTGGGCAATGTTTATGATAGTAAAGGAGAATATCAGAAGGCCATTGACTATCACAAAAAAGATCTAGAAATAAGCACTACTATTGGCGATCGATCAGGAATAGCAAGAAGCAATGGCAATTTGGGCAATGTCTATGATAGTTTAGGAGAATACCAGAAGGCCATTACTTATCACAAAAAAGATCTAGAAATAAGCACTGCTATTGGCGATCAATCAGGAATAGCAAGGAGCAATGCAAAATTGGGAAATGTTTATCATAGGTTAGGAGAATATCAGAATGCCATTGTCTATCACAAAAAAAATCTTGAAATAAGCACTGCTATTGAAGATCGATTAGGAATAGCAAGAAGCAACTGCAATTTGGGCACTGCCTATCACAGGTTAGGAGAATATCAGAAGGCCATTGACTATAACAAAAAATATCTAGAAATAAGCACTTCTATTGGCTATCGATCAGGAATAGCAAAAAGCAATGGTAATTTGGGCAATGCCTATCATAGGTTAGGAGAATATCACAAGGCCATTGGCTATCACAAAAAAGATCTGGAAATAAGCACTGCTATTGGCGATCGATCAGGAATAGAAAGAAGCAATGGCAATTTGGGCAATGCCTATCATAGTTTAGGAGAATATCAGAAGGCCATTGACTATCACAAAAAAGATCTAGAAATAAGCACTGCTATTGGCGATCGCTCAGGGATAGCAAGAAGCAGTTGCAATTTGGGCAATGCCTATGATAGTTTAGGAGAGCATCAGAAGGCCATTGACTATCACAAAAAAGATCTAGAAATAAGCACTGCTATTGGCGATCAATCAGGAATAGCAAGAAGCAATGGCAATTTGGGCAATGCCTATGATAGTTTAGGAGAATATCAGAAGGCCACTGTCTATCACAAAAAAGATCTAGAAATAAGCACTGCTATTGGCGATCGATCAGGAATAGCAAGCAGCAATGGCAATTTGGGCAATGCCTATTACAGGTTAGGAGAATATACGAAGGCCATTCACTATCACAAAAAAAATCTAGAAATAAGCACTGCTATAGCCGATCTATCAGGAGTAGCAAGCAGCAATGGCAATTTGGGCAATGCCTTTGATAGTTTAGGAGAATACCAGAAGGCCATTGACTATCACAAAAAAGGTCTGGAAATAAGCACTGCTATTCACGATAGATCAGGAATAGCAAAGAGTAATGGCAATTTGGGCAATGTCTACGATAGTTTAGGAGAATATGAGAAGGCCATTGACTATCACAAAAAACATCTAGAAATAAGCATTGCTATTGGCGATCGGTCAGGAATTGCAAAAAGCAATGGCAATTTGGGCAATGCTTATCATAGTTTAGGAGAATATCAGAAGGCTATTGATCGTCACAAAAAAGATCTAGAAATAAGCACTGCTATTGGCGATCGGTCAGGAATTGCAAGAAGCAATGGCAATTTGGGCAATGCCTATTATAGGTTAGGAGAATATCAGAAGGCCATTGACTATCACAAAAAAGATCTAGAAATAAGCACTGCTATAGGCTATCGGTCAGGAATAGCAAGCAGCTATGCCAATTTGGGCAATGCCTATCATAGTTTAGGGGAATATCAGAAAGCCATAAACTATCGCAAAAAAGATCTGGAAATAAGCACTGCTATTGGCGATCGATCAGGAGTAGCAAGAAGCAATGGCAATTTGGGCAGTGCTTATAATCGTTTAGGAGAATATCAAAAGGCCATTGACTATCACAAAAAAGACCTAGAAATTAGCACTGCTATTGGCGATCGATCAGGAATAGCAAGAGGAAACTGCAATTTGGGCAATGCCTATCATAATTTAGGAGAATATCAGAAGGCCATTGACTATCACAAAATAGATCTAGAAGTAAGCACTGCTATTGGCGCTCGTTCAGAAATAGCAATCAGCAATGGCAATTTGGGCAATGCCTATGATAGTTTAGGAGAATATCAGAAGGCGATTGAATATCACAAAAAAGGTCTAGAAATAAGCACTGTTATTGGCGATAGATTAGGAATAGCAAGAGGCAATAACAATTTGGGCAATGCGTATCATAGTTTAGGAGAATATCAAAAGGCCATTGACTGTCACAAAATAGGGCTAGAAATAAGCACTGTTATTGACGATCGATCAGGAAAAGCAAGAAGCAATTGCAATTTGGGCAATGCGTATCAATGTTTAGGAGAATATCAGAAGGCCATTGACCATCGCAAAATAGGTCTAGAGATAAGTATAGCCACTGGCGATCAGTCAGGAATAGCAATTTGCCACGCTAATTTAGGATATGTCCATCGCTGTCTAGAAGAGTATGAAGTTGCAACATTTCACCTAATAAAATCGATTAGTTTTTTTGATGAAATGTTTTTAGGTTCAGTTCCCGAACAAAATCAACTGGCATTCGTGAAGCAATATTTCGTATCTCATACAATTTTAATGGGTTGTTTCCTTTCGTTGGAGCGCGCGGAGTCCGCATTATTAGTCATTGACCTTGGTAGGTCTAAAGAGCTCCATTTCTGCATTGAAAAGCGTAGGAATTCTGTTGGTAAGGAGTTGTTCGATTATGCTCGCGCGATATGGAATAGAATTGAAGCCAGAGAAGAGCAAATAGAAATAGAAGGATTGCAAACTCTTCTCCACCTAGGAAAAAATGATACATCAATTTTAGTATTCGCTTTTGATTCGGAAGGTTTTCTTAATACTTGGGTTTTAGCTGACAAAGTTATCTTCAGAAAAGTATTAGACGCACGTCGGGAAACATTTCTTTTGCTAATTATGGAACTTCTTGGAAGGGTGGATGTTAATATTGATCGAAATTCTTCGTTTTACATGCTCGATTCTGTTCCTCATACTAATAATCAAGTGATATCTCCTTTTGAGATCCCAGGCGGAACGCCTGCGTCTAAAAATGCGGTTGACAATCCTGCTAGCTATAGTCATTTCTTTGATCGAGACATTTTGAAAATGTTGTTTAAACTTTTAGTTGATCCTGTGAAAGATATCGCTCAAGGCAATAAGCTCATTATTGTCCCTGACCCGCTGTTGTTTTTTGCACCATTTTCAGCACTGATTGATGAAAATGGCTCATATTTATCCAGCAGTTACAGTGTTCAAATTTCGCCTTCATTGCATACTCTAAAGACTACGATGGAACAATCCTTTGACTCAAACTTTGGATTTGCTTTGTTTGTTGGTAATCCAACTGTTGGAAAAGTTAATTTAAACGGAAAAGATGTTACTCCAGCTGACCTGCCCAATGCCGCTGAAGAAGTTAAATGTCTCTCAAAGTTTTTCCAAGCAAGGCCTTTATTAGGACGCGAGGCAACAAAACAGGTAGTATTGCAGCTTTTAACTGGGGCTAGTATAATCCATATAGCTGCCCATGGAGAACCGACTCGAGGTGAAATAATGCTTGCTTCGAATTTTTCTCTTACTGAACATTGCTCATCTGTTGCTAAACCAGAATCATACCTTCTCACGCAGGGAGATATTCTAGATATTTCTGTGCCAGCTCGCTTAGTTGTTTTATGTTGTTGCCATACCGGGCAAGGTGAAATTACTTCAGAAGGTGTCATAGGTATAACTCGAGCGTTTCTTGCAGCTGGGGCACGCTGTGTTCTTGCCACACTGTGGCCTATTAGCGATTATGCCACAAAGGAATTCATGGAGAAATTTTATGGTGAACTTTGCCATGAAACACCAGTTTGTGAAGCTTTACGAAGAACAATGAACTTCTTTCAGACACATGAAAAAGAGGGTTACCGGTCCAGTTGGATCTGGGCTCCGTTTACCATCTATGGGCAGGATGTGAAGTTTGGAAAAAATGAGATTGAAAAAATTAGGGAAAAATCGCATGAGTTTTTTTCCAGTTTTGTTGTAGTATGA

Transcript

rna-PACLA_8A029121

ATGGCAAGCAACAATGCAAAATTGGGTAACGCCTATCATATGTTAGGAGAACATCAGAATGCCATTGACTATCACAACACAAATCttgaaataagcactgctattggcgacaGACTaggaatagcaagaagcaacagcaatttgggcaatgtttatgaTAGTaaaggagaatatcagaaggccattgactatcacaaaaaagatctagaaataagcactactattggcgatcgatcaggaatagcaagaagcaatggcaatttgggcaatgtctatgatagtttaggagaataccAGAAGGCCATTACttatcacaaaaaagatctagaaataagcactgctattggcgatcaaTCAGGAATAGCAAGGAGCAATGCAAAATTGGGAAATGTTTATCATAggttaggagaatatcagaatgCCATTGTCTATCACAAAAAAAATCttgaaataagcactgctattgaaGATCGATTaggaatagcaagaagcaaCTGCAATTTGGGCACTGCCTATCACAggttaggagaatatcagaaggccattgactataacaaaaaatatctagaaataagcacttCTATTGGCTatcgatcaggaatagcaaAAAGCAATGgtaatttgggcaatgcctatcatAGGTTAGGAGAATATCACAAGGCCATTGGCTATCACAAAAAAGATCtggaaataagcactgctattggcgatcgatcaggaatagaaagaagcaatggcaatttgggcaatgcctatcatagtttaggagaatatcagaaggccattgactatcacaaaaaagatctagaaataagcactgctattggcgatcgctCAGGGATAGCAAGAAGCAGttgcaatttgggcaatgcctatgatAGTTTAGGAGAgcatcagaaggccattgactatcacaaaaaagatctagaaataagcactgctattggcgatcaatcaggaatagcaagaagcaatggcaatttgggcaatgcctatgatagtttaggagaatatcagaaggccactgtctatcacaaaaaagatctagaaataagcactgctattggcgatcgatcaggaatagcaagcagcaatggcaatttgggcaatgcctattaCAGGTTAGGAGAATATACGAAGGCCATTCACTATCACAAAAAAaatctagaaataagcactgctatagCCGATCTATCAGGAGTAGCAAGcagcaatggcaatttgggcaatgcctttgatagtttaggagaataccagaaggccattgactatcacaaaaaaggtctggaaataagcactgctattcaCGATAGATCAGGAATAGCAAAGAgtaatggcaatttgggcaatgtctacgatagtttaggagaatatgagaaggccattgactatcacaaaaaacatctagaaataagcattgctattggcgatcggtcaggaattgcaaaaagcaatggcaatttgggcaatgcttatcatagtttaggagaatatcagaaggctaTTGATCGTCAcaaaaaagatctagaaataagcactgctattggcgatcggtcaggaattgcaagaagcaatggcaatttgggcaatgcctattataggttaggagaatatcagaaggccattgactatcacaaaaaagatctagaaataagcactgctataggctatcggtcaggaatagcaagcaGCTATgccaatttgggcaatgcctatcatAGTTTAGGGGAATATCAGAAAGCCATAAACTATCGCAAAAAAGATCtggaaataagcactgctattggcgatcgatcaggagtagcaagaagcaatggcaatttgggcagtGCTTATAAtcgtttaggagaatatcaaaaggccattgactatcacaaaaaagaCCTAGAAAttagcactgctattggcgatcgatcaggaatagcaagagGAAActgcaatttgggcaatgcctatcataatttaggagaatatcagaaggccattgactatcacaaaATAGATCTAGAagtaagcactgctattggcgctCGTTCAGAAATAGCAATcagcaatggcaatttgggcaatgcctatgatagtttaggagaatatcagaaggcgattgaatatcacaaaaaaggtctagaaataagcactgttATTGGCGATAGATTAGGAATAGCAAGAGGCAATAACAATTTGGGCAATGCGTAtcatagtttaggagaatatcaaaAGGCCATTGACTGTCACAAAATAGggctagaaataagcactgttATTGACGATCGATCAGGAAAAGCAAGAAGCAattgcaatttgggcaatgcgtATCAatgtttaggagaatatcagaaggccattgaccaTCGCAAAATAGGTCTAGAGATAAGTATAGCCACTGGCGATCAGTCAGGAATAGCAATTTGCCACGCTAATTTAGGATATGTCCATCGCTGTCTAGAAGAGTATGAAGTTGCAACATTTCACCTAATAAAATCGATTAGTTTTTTTGATGAAATGTTTTTAGGTTCAGTTCCCGAACAAAATCAACTGGCATTCGTGAAGCAATATTTCGTATCTCATACAATTTTAATGGGTTGTTTCCTTTCGTTGGAGCGCGCGGAGTCCGCATTATTAGTCATTGACCTTGGTAGGTCTAAAGAGCTCCATTTCTGCATTGAAAAGCGTAGGAATTCTGTTGGTAAGGAGTTGTTCGATTATGCTCGCGCGATATGGAATAGAATTGAAGCCAGAGAAGAGCAAATAGAAATAGAAGGATTGCAAACTCTTCTCCACCTAGGAAAAAATGATACATCAATTTTAGTATTCGCTTTTGATTCGGAAGGTTTTCTTAATACTTGGGTTTTAGCTGACAAAGTTATCTTCAGAAAAGTATTAGACGCACGTCGGGAAACATTTCTTTTGCTAATTATGGAACTTCTTGGAAGGGTGGATGTTAATATTGATCGAAATTCTTCGTTTTACATGCTCGATTCTGTTCCTCATACTAATAATCAAGTGATATCTCCTTTTGAGATCCCAGGCGGAACGCCTGCGTCTAAAAATGCGGTTGACAATCCTGCTAGCTATAGTCATTTCTTTGATCGagacattttgaaaatgttgtttAAACTTTTAGTTGATCCTGTGAAAGATATCGCTCAAGGCAATAAGCTCATTATTGTCCCTGACCCGCTGTTGTTTTTTGCACCATTTTCAGCACTGATTGATGAAAATGGCTCATATTTATCCAGCAGTTACAGTGTTCAAATTTCGCCTTCATTGCATACTCTAAAGACTACGATGGAACAATCCTTTGACTCAAACTTTGGATTTGCTTTGTTTGTTGGTAATCCAACTGTTGGAAAAGTTAATTTAAACGGAAAAGATGTTACTCCAGCTGACCTGCCCAATGCCGCTGAAGAAGTTAAATGTCTCTCAAAGTTTTTCCAAGCAAGGCCTTTATTAGGACGCGAGGCAACAAAACAGGTAGTATTGCAGCTTTTAACTGGGGCTAGTATAATCCATATAGCTGCCCATGGAGAACCGACTCGAGGTGAAATAATGCTTGCTTCGAATTTTTCTCTTACTGAACATTGCTCATCTGTTGCTAAACCAGAATCATACCTTCTCACGCAGGGAGATATTCTAGATATTTCTGTGCCAGCTCGCTTAGTTGTTTTATGTTGTTGCCATACCGGGCAAGGTGAAATTACTTCAGAAGGTGTCATAGGTATAACTCGAGCGTTTCTTGCAGCTGGGGCACGCTGTGTTCTTGCCACACTGTGGCCTATTAGCGATTATGCCACAAAGGAATTCATGGAGAAATTTTATGGTGAACTTTGCCATGAAACACCAGTTTGTGAAGCTTTACGAAGAACAATGAACTTCTTTCAGACACATGAAAAAGAGGGTTACCGGTCCAGTTGGATCTGGGCTCCGTTTACCATCTATGGGCAGGATGTGAAGTTTGGAAAAAATGAGATTGAAAAAATTAGGGAAAAATCGCATGAGTTTTTTTCCAGTTTTGTTGTAGTATGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q96AY4	Tetratricopeptide repeat protein 28 OS=Homo sapiens OX=9606 GN=TTC28 PE=1 SV=4
Q80XJ3	Tetratricopeptide repeat protein 28 OS=Mus musculus OX=10090 GN=Ttc28 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000014 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13424 all species →	TPR_12	Tetratricopeptide repeat	Repeat	Interproscan
PF12770 all species →	CHAT	CHAT domain	Domain	Interproscan
PF13176 all species →	TPR_7	Tetratricopeptide repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR024983 all species →	Domain	CHAT domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19959 all species →	KINESIN LIGHT CHAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	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 CAB3981949.1.

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3981949.1 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

11TPM > 0

4Conditions

8.2Max TPM

0.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	3	0.18	0.47
apical branchlet · Temperature treatment at T0	6	5	1.88	8.16
apical branchlet · Temperature treatment at T25	5	2	0.67	1.92
apical branchlet · Control at T0	4	1	0.01	0.05

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	0.47
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.47
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.14
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	8.16
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.80
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.76
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.55
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.03
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	1.92
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	1.44
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
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
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.05
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00

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.