Gene detail

Detailed information of XP_032240911.1 in Nematostella vectensis

Genomic Location: NC_064041.1:11580804...11591274
NR annotation: XP_032240911.1, procollagen galactosyltransferase 1 isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032385020.2

ATAGATTTTCATTCTGAGAGGATAAGACCTGAAGGATGTGTCACACAAACCGGAAATGAACTTCAGCCGAGGACAAACGGCCCTGTGTTCGCTGACTTCCGGCACAAAGGATGATGGCCATGTCTGTAGAGTAACACGAGAGAGAAACATGCATTTACAAGTTCTGCAAACATGAAGCCTCCTAGTGTAATTTTAGCCTTTTCATTATTAATTCTAAATCTAGGAACTAACTTCGCACTTGCTCAAGACACGTCGGGAGAATCTGAGTTCAAATATCCGACCGTTTTACTATCAGTGATCGCTAGAAATGCGGCCCATCTACTGCCGAATTGGTTGGGATGCATCGAGAATTTAGACTATCCAAAAGATCGAATCTCAATTTGGATTACGTCAGACCACAATGaggataatacaacagaactTCTGAAGGAGTGGGCCAACAATGCAAAGCATTTgtaccacagggtgaccatgaaTTTTACAGGCTCTCCTAGTAACTATGGTGATGTTCTTGAGGCTTCTGATTGGACAGATGAACGCTATGCACACGTAGCATACCTGCGTCAATTAGCTTTAGATACTGCTAGATATTGGTGGGCTGACTATTTATTTgTTGTTGATTGTGACAACTTTCTTTTTAATCCAATAACACTACGTCAACTTATGCATGAAGAGAAGACAGTGGTATCTCCAATGTTAGAAGTTTTTGGGAACAAGTCAGCTTACTCAAACTTCTGGGGTGGAATGGATGAATCAGGTTACTACAAAAGGACAGATCAATACTTCACAATCCTGAACAGAGAAAAAGTTGGGACCTTTGAAGTACCCATGGTCCACTCCACATACCTTGTTGACTTGAGGAGAAGAGCATCATCGGAGCTGCGGTACTACCCACCTCACCCTGACTATCGTGGTCACCATGACGACATCCTGGTCTTTGCTCACTCTGCTAGGATGGCAGGTGTCAAGCTCCATATCATCAACAAGCATATTTATGGTCACCTGATTTTGCCATTTGAAGCCAGAGAGTCTCTAGAGGACATGCGGATCCAATTCCTTGATGGCAAGCTAGGATATTATGTGGATCATCCTGAACATCTCATGCCTCTCAGTCCACACTTGACTGTCCCTCCCGTCCCTGCTGACAAATTGGGCTTTGATGAGATCTACATGATCAATCTCAAGAGAAGACCTTTAAGAAGAAGACGGATGATGGCTTCGCTAGCTGAGCTCGGAATTCAGGCTAAACCAGTTGATGCAGTTGACGGAAAGGCCCTGACAGACGCGGAGGTGAAAGCGTTAGGAATCAAGATGTTACCAGGATATTATGATCCATATGGAAAAAGacCTCTGACTATGGGGGAGATCGGCTGTTTTCTCAGTCACTACAAGATATGGAAGGAGATGATAGAGAAGGGCCTGGAACGAGTCCTTATCCTTGAGGATGACGTCAGGTTTGAGCCTGACTTTAGGAGGAAGCTGCTGGCCATGATCGCGGACGCCAATCAGCTGGAATCGAAATACAACTGGGACATGATCTATCTAGGTCGTAAACTCTTCATTGACGATAATTCCGAGCTCGTCCCGAACGCTAGCCGAGTGGCGTTCACTGACTACTCGTACTGGACACTCGGCTATGTGCTGACTCTTTTGGGTGCTCAAAAACTGGTCAGCGTGAGGCCTCTTGAGCGCATGCTTGCGTTGGATGAATTTCTTCCTATAATGTATAACAAACATAGCAATTACGTAGGGCGGCGAAGGATGAAGACGGAATTGATCGGTCACGTAGAGGGGTCGCAGTATATTAACTGGGTGAATTACACGTGGTGGACTCTGGGATACATGATTAAACTGGAGGGGGCCCGGAAACTAGTGTCTGCCAAGCCGCTGACCAAAATGATGGCCATCGACGAGTTTCTTCCGATCATGTACGACAAGCATCCTAATGCAGAGTGGTCCGCGCATTTCTCCCCCCGGAATCTAGTTGCCATGACAGCAGAGCCGCTATTGTTGTACCCAACGCACTATATCGGCGACAAAGGATACTTTAGCGACACCGAGACGGCCGCCTTTGTACCAGAGGAGATACGTGACGCACAAGCGAAGAAAACTGAACTTTGACCAAATCAACAGTCAGGAGATCAACACTGACAATCACAACCGCTCAGACGTACAAATTGACCAACAACGcagagacagaaaaaaaaaagaccactAGACGGGAAAATATGCAACAACTGAGATGTTGACAATATACAACAACTGAGATGTTAATTAACATTGATTAATAGACAACAGCTTAGACGTAAACATCAACCAAATGGAAAACAACTGAGACAATACAACAACTAGGACGTAAACGTTGACCAACAGACAACAACTGTAACAAAAACATTCATCAATAGACAACAAATGAAGCGTAAACTTTGACCAAAAGACAACAACTGAACCTTAAATAATAACCAAAAGCaactcttacatcatggtctcttgccaAAAGACAACAATTGAGATTTAAACAATGACCACTAGGCCACAAATGAGACGTAAACAATGACCAAAAGACGATAACTGATACGGAAACATGACCAATACGACAATTGAGAAGTGAAAACATTGATCAACATAACAACCAGGAGGTAACAAGAACAGAGAGATGAAAATCAATACAATTAAAAGGTGGAAATTGATGAATGTTTGCTTCTGGCGGAATAGTTGATAGAGGAACATACACTCGATGGATAAGACAAGAGTTGATCAAAAACGATGGTCCAAAAAGAAATATGAAAAAGATGCCCCCAGACATAAGAGCCCGTCCTAAGAAGACTTTTAACTTGTAAGAACAATATTTTATGTATCGTAAGgatgaaataaagtaaagatatgtttcttccttttc

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8IYK4	Procollagen galactosyltransferase 2 OS=Homo sapiens OX=9606 GN=COLGALT2 PE=1 SV=1
A5PK45	Procollagen galactosyltransferase 1 OS=Bos taurus OX=9913 GN=COLGALT1 PE=2 SV=1
Q6NVG7	Procollagen galactosyltransferase 2 OS=Mus musculus OX=10090 GN=Colgalt2 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003179 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01755 all species →	Glyco_transf_25	Glycosyltransferase family 25 (LPS biosynthesis protein)	Family	Interproscan
PF13704 all species →	Glyco_tranf_2_4	Glycosyl transferase family 2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029044 all species →	Homologous_superfamily	Nucleotide-diphospho-sugar transferases	Interproscan
IPR050757 all species →	Family	Collagen-modifying Glycosyltransferase 25	Interproscan
IPR002654 all species →	Family	Glycosyl transferase, family 25	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10730 all species →	PROCOLLAGEN-LYSINE,2-OXOGLUTARATE 5-DIOXYGENASE/GLYCOSYLTRANSFERASE 25 FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0050211 all species →	Molecular Function	procollagen galactosyltransferase activity	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
K11703	GLT25D; collagen beta-1,O-galactosyltransferase	EC:2.4.1.50	Glycosyltransferases	ko01003	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_032240911.1 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

46TPM > 0

16Conditions

45.3Max TPM

27.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	30.37	37.16
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	23.45	29.72
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	17.33	18.74
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	18.25	19.88
whole 6 week old aboral regenerate · regenerate uncut	3	3	13.97	15.75
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	20.09	21.54
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	32.07	37.15
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	40.15	45.27
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	33.53	36.45
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	34.46	36.92
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	29.92	32.41
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	28.22	34.76
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	35.55	39.25
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	25.42	43.44
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	31.49	37.68
whole 6 week old aboral regenerate · regenerate 12hpa	3	2	18.96	31.80

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	37.16
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	32.86
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	21.09
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	29.72
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	21.35
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	19.27
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	18.74
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	17.40
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	15.85
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	19.88
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	18.40
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	16.48
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	15.75
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	14.60
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	11.56
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	21.54
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	20.88
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	17.86
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	37.15
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	31.68
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	27.38
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	45.27
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	40.84
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	34.34
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	36.45
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	34.57
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	29.56
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	36.92
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	33.35
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	33.11
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	32.41
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	31.18
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	26.18
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	34.76
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	31.20
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	18.69
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	39.25
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	33.71
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	33.67
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	43.44
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	32.83
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	37.68
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	36.66
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	20.12
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	31.80
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	25.07
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.