Gene detail

Detailed information of CAB3999316.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3999316.1, microtubule-associated s 1A 1B light chain 3A-like [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3999316.1 in PCLAV (the gene ID may belong to a different isoform naming scheme). Try the gene search.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q2HJ23	Microtubule-associated protein 1 light chain 3 alpha OS=Bos taurus OX=9913 GN=MAP1LC3A PE=2 SV=1
Q9H492	Microtubule-associated protein 1 light chain 3 alpha OS=Homo sapiens OX=9606 GN=MAP1LC3A PE=1 SV=2
Q91VR7	Microtubule-associated protein 1 light chain 3 alpha OS=Mus musculus OX=10090 GN=Map1lc3a PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001142 (this species only)
Ubiquitin family	ULD\|UBL\|ATG8 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02991 all species →	ATG8	Autophagy protein Atg8 ubiquitin like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004241 all species →	Family	Autophagy protein Atg8 ubiquitin-like	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10969 all species →	MICROTUBULE-ASSOCIATED PROTEINS 1A/1B LIGHT CHAIN 3-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000045 all species →	Biological Process	autophagosome assembly	Interproscan
GO:0000421 all species →	Cellular Component	autophagosome membrane	Interproscan
GO:0000422 all species →	Biological Process	autophagy of mitochondrion	Interproscan
GO:0005776 all species →	Cellular Component	autophagosome	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006995 all species →	Biological Process	cellular response to nitrogen starvation	Interproscan
GO:0008017 all species →	Molecular Function	microtubule binding	Interproscan
GO:0016236 all species →	Biological Process	macroautophagy	Interproscan
GO:0031625 all species →	Molecular Function	ubiquitin protein ligase binding	Interproscan
GO:0097352 all species →	Biological Process	autophagosome maturation	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
K10435	MAP1LC; microtubule-associated protein 1 light chain	-	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 CAB3999316.1 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

18TPM > 0

4Conditions

235.2Max TPM

70.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	5	61.48	110.51
apical branchlet · Temperature treatment at T0	6	5	53.87	102.29
apical branchlet · Temperature treatment at T25	5	4	73.31	162.74
apical branchlet · Control at T0	4	4	107.62	235.18

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	110.51
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	87.04
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	72.25
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	54.08
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	45.01
SRR19977433	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	102.29
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	96.05
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	50.32
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	38.36
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	36.22
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	162.74
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	98.39
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	74.74
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	30.66
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	235.18
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	110.69
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	46.46
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	38.16

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.