Gene detail

Detailed information of XP_001635489.1 in Nematostella vectensis

Genomic Location: NC_064041.1:11684267...11692151
NR annotation: XP_001635489.1, L-cysteine desulfhydrase [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001635439.3

CTCCGAGTACTCTCCGAATGTCGTCAGTAAACAAAATGTGGAGCCATTTCTTCTTGTGCAAAGGTCAAGCTGAAATCAAAGCCTCAATTCATGCGAATACCTCAAAGAGTTCGTACACGTTCTTGAAGGGCACAAGCCCTTCCCGCCAAGCCTTTCATGTTACTGATTTGTGATTACTAATAACTAATGGAGTTTCTTACACGGATCGTCTCAAGTGTTGCCCAGTTCTGTACCTTTTTCCTGTTGGTCGCTTATGTTGGCGTGATCAAGATGTCTAACATAGTTCTCGCATATCTGCTCAGTCCTGGCCTCAAGAAGTCTCTGTTTGGCAAATTCTTACTCTTACATGAATTCTATCTCGACTCCAATATCACCCATGTCAATAATGGGTCATTTGGTGCTGTTCCTAAGAGGGTTATGGAGGAAAGGCTAAAGCATCTGTACGAGGAAGAGGGTTGCCCAGATGGCTGCATATTCTACAAGAGCACTGACAGGTGGCTTGAGGCTGTGAAATCTGTGGCAAACTTCATCAACTGTGATCACAGGGACTTAGTCTTTGTAAATAATGCAACCCAAGGAATCAATGCCATTCTGCGATCCCTTGACCTCAAGGAAGGAGATAGCGTGCTTGTGACTAATCAGACATATGGTGCAGTCTCCATGACAACCCAGGAAGTATGTCATTCAAAGAAGGCTAACTTAGTGGTGCTTAACTTGACATTCAGAACATCTGACCTGGGAGGCCACTCAGATTATTATGTTGTGGACATTGTGGGACAGTATCGGAAAGTTCTCCAAGAAAACCCAAATATCAAGATCGCAATCATTGACCACATCACTAGCTCAAGTGCTCTGTTGCTGCCGGTTAAGAAATTGCTTAAGGCGTGCCATGATCATGGTGTTATGGCGTTAGTCGATGGGGCGCATGCACCCGGTCAGGTTTCACTGGAGATTGACAGCCTTGATGCTGACTTCTATGTTGGGAACCTCCACAAGTGGATGTTTGCACCACGTGGAACAGCATTTCTTTGGGTCCACAAGAAGTACCAAAGCCAGATCAACCCCCTAGCTGTCTCCTGGAATCACTCCCTTGGATTCCAGATGAAATTCTTGTTGCAAGGGACTGAAGATCAGAGTAACATTTTTGCAGTTGAGGCGGCACTGCAGTATCACTATCATTTGGGAGGACTGGAGAACATCCAATCACACAACATGGCTTTGTGTCATTGGGCATCTAATATGCTGGCTTCTAAATGGCAGACAGAGACCCTACCCATACCAGACAACATGCGGGCGCCGTATATGGCTTGCATTCGACTGCCTCAGGAGATAGGGATAGCCTATGGGGCTACTAGGCCTGGAGAATCAAAAGCAAGGAAGGACCTGTTTGAACGCTACAGCATCTGCGTCGCTGTCACCTGCATTCAGTCATCATTATGGTGTCGTATCAGTTGTCATGTGTATAACTGTGAGGATGACTATAAAAAGCTCGCAGAGGGTGTGCTTCGCCTTAAGCAGGCCATAATCAATGGTTATAGACCACCTGTTGATAAGCATGGTCTAAACTCACAGCTATCTAGTGCAGCGACTTCAGTGGATAATATTACGAGTAGCGAGAACTATGCTAGTGAGCGCTTGTAGACAAATAGCCCCTCTTTATTGATTGCACTAATTTGTGAGATTTAAATGGACATAACAGATCTTTCAATTGATCTACTATCCCTTCCTAAAAAGACTACTTGCAAGGGAAGACCTTTAGAAATATTCTCAATTTATTCTAAAAAAGGTttgaccccccaaaaaaattcagACTACAAAGATATGACACAACAACAAATAttagtaaaaatgaaaaattagAGCCGTCAAGTTATTTTACAGAAACATCAAATAATGACCAAATTGCATCAtatggaatattttttttttcatattttatcTGATTCAACAACTACAGATCACTAAAGCATTACTGTAGTGGCTCAAAATACTGAGTGGGGGGCATGATACTAAGATAGAAGCCTatactgggggtgggggggggaccCTATTGGCACTGTTAAGTGTCCAAAGTGATTCTTCATTAATAGTTACTATGAGCATGAGGCAATTTTTTACTCTTATATATAACCTAGAAGGccaattttatttcatttaatatttattttgatttaattTGCTTGATAACTGttgttcataaaaaaaatgatatcttATTTATTGTTTGTGCTTTGATGAAAATAAACCACCATCAGACAGCAAAAATTTCAATAGACAAATAGGTGATTTCCTCTACAAATGTTATTACTAATagagaaacaacaacaataaaattacATTAACAATCCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A7UX13	Hercynylcysteine sulfoxide lyase OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) OX=367110 GN=egt-2 PE=1 SV=1
P18549	Isopenicillin N epimerase OS=Streptomyces clavuligerus OX=1901 GN=cefD PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002316 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00266 all species →	Aminotran_5	Aminotransferase class-V	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015422 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, small domain	Interproscan
IPR015421 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, major domain	Interproscan
IPR000192 all species →	Domain	Aminotransferase class V domain	Interproscan
IPR015424 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43092 all species →	L-CYSTEINE DESULFHYDRASE	Interproscan

Gene Ontology

No Gene Ontology signature was detected for XP_001635489.1. This gene does have a gene model — the search simply returned no hit.

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
K20247	EGT2; hercynylcysteine S-oxide lyase	EC:4.4.1.36	Histidine metabolism	ko00340	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_001635489.1 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

41TPM > 0

16Conditions

20.8Max TPM

5.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	7.63	8.72
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	5.09	7.12
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	5.62	6.31
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	5.25	6.34
whole 6 week old aboral regenerate · regenerate uncut	3	3	5.12	5.48
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	4.62	9.17
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	4.29	7.01
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	6.40	7.45
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	6.78	10.01
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	2.89	4.91
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	4.27	5.20
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	11.62	20.75
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	7.52	7.73
whole 6 week old aboral regenerate · regenerate 48hpa	3	1	2.50	7.49
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	4.78	7.80
whole 6 week old aboral regenerate · regenerate 12hpa	3	2	6.05	13.37

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	8.72
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	7.14
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	7.02
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	7.12
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	4.48
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	3.69
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.31
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.33
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.24
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	6.34
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	4.83
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	4.58
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.48
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.32
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	4.55
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	9.17
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	4.71
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	7.01
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	5.86
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	7.45
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	6.75
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	5.00
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	10.01
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	5.37
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	4.97
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	4.91
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	3.76
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	5.20
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.95
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	3.66
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	20.75
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	7.16
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	6.94
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	7.73
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	7.72
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	7.11
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	7.49
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320871	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	7.80
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	6.53
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	13.37
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	4.78
SRR6320879	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.