Gene detail

Detailed information of gfas1.m1.1069.m1 in Galaxea fascicularis

Genomic Location: Sc0000026:141185...148242
NR annotation: XP_020629491.1, ubiquitin fusion degradation protein 1 homolog [Orbicella faveolata]
Species Galaxea fascicularis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q92890	Ubiquitin recognition factor in ER-associated degradation protein 1 OS=Homo sapiens OX=9606 GN=UFD1 PE=1 SV=3
Q9ES53	Ubiquitin recognition factor in ER-associated degradation protein 1 OS=Rattus norvegicus OX=10116 GN=Ufd1 PE=1 SV=1
P70362	Ubiquitin recognition factor in ER-associated degradation protein 1 OS=Mus musculus OX=10090 GN=Ufd1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006228 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03152 all species →	UFD1	Ubiquitin fusion degradation protein UFD1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR042299 all species →	Homologous_superfamily	Ufd1-like, Nn domain	Interproscan
IPR004854 all species →	Family	Ubiquitin fusion degradation protein Ufd1-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12555 all species →	UBIQUITIN FUSION DEGRADATON PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006511 all species →	Biological Process	ubiquitin-dependent protein catabolic process	Interproscan
GO:0030433 all species →	Biological Process	obsolete ubiquitin-dependent ERAD pathway	Interproscan
GO:0031593 all species →	Molecular Function	polyubiquitin modification-dependent protein binding	Interproscan
GO:0034098 all species →	Cellular Component	VCP-NPL4-UFD1 AAA ATPase complex	Interproscan
GO:0071712 all species →	Biological Process	obsolete ER-associated misfolded protein catabolic process	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
K14016	UFD1; ubiquitin fusion degradation protein 1	-	Ribosome biogenesis	ko03009	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of gfas1.m1.1069.m1 across 22 RNA-seq samples of Galaxea fascicularis. 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.

22Samples

16TPM > 0

4Conditions

183.9Max TPM

53.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
coral holosome · Control	7	4	49.37	183.85
coral holosome · 30ic treatment	6	5	61.69	180.25
coral holosome · Prometryn (herbicidess) treatment	5	4	71.63	144.00
coral holosome · Prometryn (herbicidess) and 30ic treatment	4	3	26.90	38.34

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27118485	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	183.85
SRR27118480	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	66.83
SRR27118487	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	47.94
SRR27118486	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	47.00
SRR27118488	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118491	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118492	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118468	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	180.25
SRR27118476	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	52.95
SRR27118478	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	49.02
SRR27118479	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	45.23
SRR27118466	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	42.67
SRR27118477	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	0.00
SRR27118482	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	144.00
SRR27118483	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	124.28
SRR27118469	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	51.66
SRR27118481	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	38.22
SRR27118484	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	0.00
SRR27118490	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	38.34
SRR27118475	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	36.55
SRR27118472	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	32.71
SRR27118489	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	0.00

Source: CnidoSite RNA-seq expression matrices (GFASC_TPM, StringTie quantification over 22 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.