Gene detail

Detailed information of CAB4038493.1 in Paramuricea clavata

Genomic Location: pcla8_s027911:600...3355
NR annotation: CAB4038493.1, Tubulin-specific chaperone E [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A016907

ATTAATTCGAAACATGGCGGACTGTAGTGGCAAAATGGAAGGAACAAGAGTAGTTTGTGATGGAGAATACGGCACAATAAAGTACTTTGGCGAAGTACCACCATCGAATGGTTTATGGTATGGTGTTGAGTGGGACGTGGACGGCAGAGGTAAGCACAGTGGAGAACATGAAGGAGTGAAATACTTCACTTGTTCTCGCCCTGGAAATGGCAGTTTTGTTCGTGCAAAGAAACTTGACTTTGGTGTTGATGTTGTTACAGCTTTAGTAAGTAAATTCAGTGAACTACACAGTAAAGAACAGTTTTCTGAGTTCGACTGTGTATATCATGTTAGTAAGAATGAAAGTGGTGCTTTTGAAGAAAAGGTTAAACGACTTGAACGTGTAAGTTTGCGTGGGGCAAATGTTTCTCGTGGGCCTGGGGATGGAAAGTCTCTTGGTTTAGTTGCACCTAATGTTGTGGAGTTAGATTTATCAAATACACTATTATCTGACTGGCAAGAGGTAGTCAAGATTGTGAATGAACTACCTTGTCTTTCTGAGCTGGATGTCAGTGGACTGCATCTGAACGCTAGCAGTTTTAATCTGGAAAGAAACAAATTACAAACTTTGCCGCTGAAAACTTTAGTTGTCAATTATATGCGTTTAAATTGGCAACAAGTTCTTACATTGTCATCCACATTTAGTGGCCTGCAGGAGTTGCATGCTAGCTTTAACAACATAAACAGCATAAAATCAGGAGACATTAATAATTTGAATTGTCTGTGCAAGCTCAATTTGGAAGGAAATAACCTGTCCAACTGGGATGATGTGTTTTTGTTACATGCGTTACCATGTTTAGAAATGCTAGTCCTGAGTGAAAATCCATTGGGCAATGTTTCATTACCTGGTGATATCATCGAACTTACTGATATATTTCCGAGGCTGAAATCCTTGGGTTTGATGAATGCTATGATATCAAGCTGGAGCAGTGTTGATCAGTTGAACAGACTTCAAGCATTAGAAGTACTATCTCTGAAGTGTTGTCCTTTGGTGAGTGATGTAAGCCAGTATGATGCAAGACAGGAGCTGATAGCAAGGGTTGCCAGATGCAGCACATTGAATGGGAGTTCTGTCACTGTAAAAGAGAGAAAAGCTGCTGAGAGAGCTTACCTCAAGAAATATGGTCAAGAATGGCTTAAATCAGGTGGTAATACTGGCACTTCACAATCTGAAATTGATTCCAATTTCATGATAAAACATCCAAGATATGTGTCATTGCTTGAAGCTCATGGTGTTCCAGATGGTCTTGGTATGTCGTCTGGCAATGCTAACACACTCAAGAGTAGTCTGATTGTTGTTACAATTAAATGTGTAAATGACATGGACAGACAATCTATCACAAAGAAGCTTCCAGCTACGATGACCATCTCAAAACTAAAAGGACTTTTGCAAAGAGTATTTAAAGTCTTGCCGTCAAGCCAATTTTTGTCATATGTTGATCAAAATGATCATGAAGTTAAACTGGATGATGATCTCAGGTCACTCTCATTCTACTCTGTTGGTTCTGGAGACACCATCCATCTTAAGTGGTGAATGTTATGAATCTTATCATGCTTTAAAAAGTAATTTAACTAATGTGCAAATGTATTAGTGTGTATTTTATATCAACAGGGCTGTAGCTAGatgcgataattgggggggggggNNNNNNNNNNNNNNNNNNNNgggggggggggggggtgtatattcatatattcatgttcatatactgtaaaaacaatcgctttcaaattAAATCCGtcaggcagaacacgaatatatgaatatgcacccccccAATTAttggtctagctacggccctgtatatCAATTACATGTATATCAATTATACAGGCCCACAGGGTGAaatgaataaaaatacaattGTAAAATGGTCAATAAACTGAAAAATCCACAATTTCTGTAGAATTCAGGTGAATATAGGTATTTCAGGTCTTCTAATATTTCTAGCATTTAAACTAATATGAAAATTTAACTTTTGATTGCAGGTGGGTTGGCTCAAGTTTGGAAAGTGTTTTATGAACTAGCACATTACGGAGTATCAGACAATTTGATGTACATTGAAGTCCGCCACATGACCTCAAAAACTTGGTTGTGATTTAATTAAACCTTCCATTTTTGTATGCAAGCCACTTTTAATGTGGTTTTTAACAACAGCCTTCCTGAACTAAGAAGTTCAATTTTCAGTTTTAGGTAAATCGGAAGACCCTATTTTTCAGAAATGTTGCGGATTTTTCAGTTTAATGGCCATTTACAATTGTGTACTTTTTGTGATACAAGGCTGTGGTTTCTTCCACATTTTCTTCAGATTAATTAGCTAGAACAAATTAATTGAAGTACATATTAACATTAAATCTTGCCTGACCATGAAACACTTTATTTTGTTTAGCTTTCAAACATTTGCGTGGAATGTTATGCATTTGTTCGTGCAAGTGACGgagggggattttctaagaggcaatatttttttttgtatacctatagaagaaatttttttttctcacttgatgactggaaattttttttaagtgaATTTTATAGGCTTATCATTCaagcaaggaatttttttttgcaccATGTCTGGGAAGATTTTTTTTCCTAATTGTTTCCGCAAAATAATCTGTGCTTCTGACGTATAAACTCGAACGGTGCCAGCGAGGTAGTACcattggtcttcacatgggactcatgtcctgttgaccgtCCAAACCTTCag

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5U508	Tubulin-specific chaperone E OS=Xenopus laevis OX=8355 GN=tbce PE=2 SV=1
Q5U378	Tubulin-specific chaperone E OS=Danio rerio OX=7955 GN=tbce PE=2 SV=2
Q32KS0	Tubulin-specific chaperone E OS=Bos taurus OX=9913 GN=TBCE PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006104 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14560 all species →	Ubiquitin_2	Ubiquitin-like domain	Domain	Interproscan
PF01302 all species →	CAP_GLY	CAP-Gly domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036859 all species →	Homologous_superfamily	CAP Gly-rich domain superfamily	Interproscan
IPR000626 all species →	Domain	Ubiquitin-like domain	Interproscan
IPR032675 all species →	Homologous_superfamily	Leucine-rich repeat domain superfamily	Interproscan
IPR044994 all species →	Family	Tubulin-specific chaperone E	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR044079 all species →	Domain	TBCE, ubiquitin-like (Ubl) domain	Interproscan
IPR000938 all species →	Domain	CAP Gly-rich domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15140 all species →	TUBULIN-SPECIFIC CHAPERONE E	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000226 all species →	Biological Process	microtubule cytoskeleton organization	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006457 all species →	Biological Process	protein folding	Interproscan
GO:0007021 all species →	Biological Process	tubulin complex assembly	Interproscan
GO:0007023 all species →	Biological Process	post-chaperonin tubulin folding pathway	Interproscan
GO:0043014 all species →	Molecular Function	alpha-tubulin 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K21768	TBCE; tubulin-specific chaperone E	-	Cytoskeleton proteins	ko04812	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB4038493.1 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

16TPM > 0

4Conditions

24.4Max TPM

7.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	11.65	20.24
apical branchlet · Temperature treatment at T0	6	5	9.57	24.37
apical branchlet · Temperature treatment at T25	5	3	3.07	8.27
apical branchlet · Control at T0	4	2	4.31	14.75

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	20.24
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	15.57
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	12.59
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	11.79
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	5.41
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	4.30
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	24.37
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	17.42
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	11.92
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	2.43
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.27
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	8.27
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	3.57
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	3.50
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
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	14.75
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	2.51
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

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.