Gene detail

Detailed information of XP_001626883.2 in Nematostella vectensis

Genomic Location: NC_064041.1:5669232...5677733
NR annotation: XP_001626883.2, ubiquitin-associated domain-containing protein 1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001626833.3

CAAGCTGAAAGAAGGGACTGTTCTGCGCATCGAGTGCAAAACAAGAAGTAAAGTCAAGTAGACGAGCGTATTACAATGAGAGATTTCGAGCTTCAGGGCTTGAAATCGCTCAGATCTGTACCGTTAATACGTATAAAAGTCACCTGTACATCAGGAAAGGACCAATCCCTCGCTGTCTCCTTGAAAGATACCGTTTCTCTTGTCAAGGACCGTGTTTTGGGTGGTGAATTTTGCAAAGAATCGTCGTTCTACAAATTGGTTGTTGCTAAAACTCGACGGAATTTGTCGGATGAGAATACACTTGAAAAAGAAGGAATTAGCGAAGACGATGAGTTAATTTTGTTAAAACGACGGCACAGTTCGGCATGCGATCACGAGAAAGAGAAGAAAAGAATTACATACAAGATACCAGACATCTCTACCATACACAAGCTTACCTCAACTCTACCTGCTGATGAAGATACAGAGGTCCCTACTGCTTCTAGTACACAATTCAATTTCAATAGGGAATTACGGCGGATCTTAGTATCCCTCATAGACTCCTCCATTTTGCTTCAGTCTTTGGATGAGGACTCTCAAGAAGCAAGCACAGcTAAACCAGAAGAGCCATCACTAACTGTTGATCCTGTGTCCTTGAAGCAATTGACAGATATGGGATTTGATACCGCACGAGCCACAAAATCACTTTTGGCGAATCGGATGTCTCCGATGCTAGCCATGGAGTGGCTGTTGCAACATGAGTCAGATTCGGATATCGATGAACCTTCTACTCCAAGCACAAGTCAGGGCCGCACACATAGGAAGCGAAGGGAATTCACACCCAACCCTCAGtcggttagaaatctgaaggagATGGGATTTGAAGAAGAGGAGATCATGGTTGCGTTGAAAGTATCAGGAAACAACCCTGAAGCTGCATGTGATTGGCTCCTGGGAGATAGGAAGGAGGGTGCGATGAGTTCAGATGAAGGGCTAGACCCTGAAAGCCCTATGTACAAAGCCATCATGGAAAACCCACTAGTTCAACTCAGCTTGTATAACCCCAGGGTGCTTGGAGCATTTGAAGACATGCTGGATAGTCCTAACACAAGTAATGTGTACATCAACGACCCAGAGACAGGGCCAGTTTTGCTCCAGATATCATGTATTGTGCAGGGATTTGCCAGATAGTGAATGTTGTGTGCCACCTACCTGGCCATAGCCTACAAATATTTCCTGTAAATATTACACATAGTCCAGTTGCTTAGCCATGCCTCACAAGGTGCTGGCCGGTACTGCTCCCAAAATCAATATCCCCAGGGATTTGCCAGTTAGTAAAGGGTACATGTCACCTTTCCTGGCCAAAGCCTTTGTGTTTGGCAAGTCAAATGCTGATTACCCTAGCCAAGAAAACTGAACTCTGTCCTACATGTTGCTGGCCTATTGACAGACTGGATATGATGTCCAGGAATTGGCCAGATGGAACCTAGCGAATGTCTTCAATTTGTTTGCTAGTACTACACAAGGTATTGTGACCGTCAAGGGTATTGGTAGATTATGAATGGTCCCCATCTTTTCTGGCTATGAAAGCTAAGTGAATCTCCAAAATGTGTTGCCTGGCCCTGGGTAAGGGTATTTCTTTTGCATGTTCTGGCCACCATTTTTATGGATATGGTGAACCATTCATATTTGATTGTTGtcacaaaataatatttttttcaaaaaggttTAGTTATTTTGTCCAGGGTATAGCATGGCACTGACTGGCAATCGTAATTTTCCCTGTGCTTAAAGACTTCAACTCTCACTGAATACTTTTGATATTGAATATTATCTAGGGTTTAGTCTAGTATTATGGTCTAGTATTTGATCATCACTTTTtcctggaaatgttttttttaattgttgtcCATGGCATAGCCTGGTATTGACTTGTCTTTGTCACTTTCCTTGTCTTTAAAGATATGGCTTGTTACTAAGTGTTTGGTATAGATATTCTATATTGTCCAGGGTATATCCTGGTATTGTCGGGACACCATATTTCCTGGTCTTGATTTTGatcattccaattcccttctAATCATCTTTTGTTAATGCACATATCAACTTGTCATGGTTTGACCAACGTcacaaatattgtaaatattgaACATTGTAACATCTCTGTATTAAAGAATCTTAACCTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9BSL1	Ubiquitin-associated domain-containing protein 1 OS=Homo sapiens OX=9606 GN=UBAC1 PE=1 SV=1
Q28DG7	Ubiquitin-associated domain-containing protein 1 OS=Xenopus tropicalis OX=8364 GN=ubac1 PE=2 SV=1
Q5XIR9	Ubiquitin-associated domain-containing protein 1 OS=Rattus norvegicus OX=10116 GN=Ubac1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007148 (this species only)
Ubiquitin family	UBD\|Alpha-Helix\|UBA · all ubiquitin genes in this species
Ubiquitin family	ULD\|UFD/UBQ\|UBQ_PIM · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00627 all species →	UBA	UBA/TS-N domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015940 all species →	Domain	Ubiquitin-associated domain	Interproscan
IPR041926 all species →	Domain	UBAC1, UBA domain 1	Interproscan
IPR041927 all species →	Domain	UBAC1, UBA domain 2	Interproscan
IPR052476 all species →	Family	Ubiquitin-associated domain-containing protein 1	Interproscan
IPR000626 all species →	Domain	Ubiquitin-like domain	Interproscan
IPR009060 all species →	Homologous_superfamily	UBA-like superfamily	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46738 all species →	UBIQUITIN-ASSOCIATED DOMAIN-CONTAINING PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000151 all species →	Cellular Component	ubiquitin ligase complex	Interproscan
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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12174	KPC2, UBAC1; Kip1 ubiquitination-promoting complex protein 2	-	Ubiquitin system	ko04121	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_001626883.2 across 48 RNA-seq samples of Nematostella vectensis. 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.

48Samples

47TPM > 0

16Conditions

63.1Max TPM

35.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	34.51	36.00
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	28.21	35.60
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	32.90	34.77
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	33.24	36.06
whole 6 week old aboral regenerate · regenerate uncut	3	3	33.77	38.39
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	39.04	52.33
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	33.91	36.94
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	38.21	45.01
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	33.59	38.41
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	41.11	47.24
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	41.02	45.75
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	34.88	38.55
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	31.30	35.84
whole 6 week old aboral regenerate · regenerate 48hpa	3	3	45.29	63.11
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	36.70	38.25
whole 6 week old aboral regenerate · regenerate 12hpa	3	2	28.43	43.98

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	36.00
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	34.26
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	33.26
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	35.60
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	25.80
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	23.24
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	34.77
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	33.48
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	30.46
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	36.06
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	32.16
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	31.49
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	38.39
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	33.60
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	29.32
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	52.33
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	34.35
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	30.43
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	36.94
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	34.78
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	30.00
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	45.01
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	39.88
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	29.73
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	38.41
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	34.88
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	27.46
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	47.24
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	39.80
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	36.28
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	45.75
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	39.52
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	37.80
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	38.55
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	34.74
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	31.35
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	35.84
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	33.46
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	24.60
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	63.11
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	42.42
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	30.35
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	38.25
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	36.69
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	35.17
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	43.98
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	41.29
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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.