Gene detail

Detailed information of BRAKERKREP00000022948.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: WP_047249846.1, 2,3-diaminopropionate biosynthesis protein SbnB [Chromobacterium subtsugae]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000022948

ATGCAATTCGATTCGATCGACAAGTTTGTAAGAGATGACGTCTTTCTGGAATTGCGCCAGTTCGTGCCATCCCAGAACGTTTATCTGAAGCTGGAAGGATTCAACGCCGGCGGCTCCATCAAGCTCAAGACCGCCACCGCGCTGGTTCGACACGCCGAGATGTACTGCCATCTCAAGACCAAGCGCAAGTTCATCGAATCTAGCTCCGGCAATCTCGGCCTATCTCTCAGCGTGATCGCAGCGGCCAGGGGCTATCACTTCACCTGCGTGGTCGATAAAAATAGCAGCGAGCAGAGCATCGGCATCATGCGCGCGCTCGGCACGACGGTCGTGGTTATCGACAAGCGCGACGCGCAAGGCGGCTATCTAGGTAGCCGGCTGGAATATATTCGTGCCGTGCTCGCGCGGGATCTGGATCAGATCTGGTTGAACCAGGGCGGGAACGACCGGCACGCTGATGGGCTGCGTTGCCGCTTTCCGCCTTCATTCCCCCTCCACGAAGCTCGTCGCCGTCGATTCGATAGGTTCCGTCACGTTCGGCACCCCCGGCCGGCGCCGTCATCTGCCGGGGCTCGGCGCCAGCGTGATGCCGCATTTCTTCGACCACACGCAGGTCGACCACATGATCCAGATACCGGAAACGGCAACGATCGCCACCTGCCGCGATGTCGCCGCGCGATACGGCTATCTGGGCGGCGCATCGACGGGCACCGTGCTCACGGCCGTGCGGCAGATGCACACGACGATTCCGCCGCACGCGTGCGTCGTGGCCATTTCACCGGACCTTGGTCATACGTATTGCGACACGGTCTACAACGACGCCTGCCCAGCTTTAGCGTAATTCCCGGCGACTTTATCGAGACGACCTTGTCGGCTACGAAACCGCAGATTATCGACATCGTGCGCCAAGGGTACTTGTTGCATCATTACCGCAAGACGATCAATCCGAACAGCTACTTTCTGTGTTTCGACGATAAGCCGGAAGCACGCATCATCGCATTGCCCGCTGCGGTACGCGATTTCGACGGCGGGCTGTCGGTATCTGGCATCAAATGGATAAGCAGCTATCCGCATAACATCGACGCCAATCTGCAGCGGGCGTCGGCCGTCGTGATACTGAACGACTATCAGACCGGCTACCCGTTCGCGTGCCTCGAAGCTTCGCAGATTAGCGCTGCGCGTACGGCGGCATCTGCCGTGCTGGCGGCCCACTCCCTGCACGGCGACGGCAAGCGGGCAGCGTCGCTCGGCGTGATTGGCGCGGGCGTGATTGCCCGCACCATACTGGCGTACTTTGAGGCGGACGGCTGGCAATTCGACGACGTGCGCGTGCACGATCAATCGGCGCTACATCGCGACGCTTTCGTGCGCAATGTGGCGGCGACTGCGCCTGGTCCTCTGCGCGGGGTGACGCTCGATGACGCGCTCGATGCATCGATCGTCGTACTGGCAACCACCGCCGGGACGCCATGGATTGCAGCGGACCGCTGGTGGCGAGCGGACCAGCTTGTCCTGAATGTGTCACTGCGTGATCTCGCGCCGGAGACGATCCTGCGCAGCAACAACGTGCTTGACGACATCGACCACTGCATGAAGGCCAACACCTCGCCCCATCTGGCGTTGCAACGATATGGCCACCATGACTTCGTCAACGGCACGCTCGCGCAAGTCATCGAAGGCGAGGGGTGGAGAGCGGATGCCATCTCGCCGTGCCGAACTTTTTTCCGAACCCCCAGCGCTGGAGCAGCTAAAGCCATGGCCATTGATCACGACATCCGTCTTCTCGCCGACGACGCCCACCCTGTCTCGCTCATGACACACAGCGAGCTTGGGCCATTTCTGTCTGCACGTGCAGTCCCCGTTTGTGCCGAACATGTTCGAGGCAGACAATCGGCTCGCAGCCACGCGCAGCGACCGGCATGTGGTGCACGACGGCAATCTGGCAACCTTGTTGGCGACATTGAGGCCTTACCGCATTCGGGCCGTGCTGCCAGGAAGCGAAAGCGGTGTGCTACTCGCCGACCAGATCAACGACGCGCTCAAACTAAGCTTCTCGAACGGATCTGCCCAATCGCATGCGAGGCGCGACAAGCATGCGATGCAAGCGCGCATCGCCCAAGTCGGACTTGCGTCTATCGAGCAGTGCCTAGTCGACGATCTGGCCATGCTGCATGCATGGCTAACCCACCACGATCGCTGGCCGGTCGTCGTGAAGCCCGTGCAGAGCGCGGGCACGGACGGTGTGGCGATCTGCTATACGCGCGAGCAGGCCGTCGCGGCGTTCGCGACGATCATCGCGCAGCGCGATTTGTTTGGCCAGCCGAACGTGCGGGCCTTATGTCAGGCGTATCTTGCTGGCGAAGAATATGTTGTCAACGGCGTGGCCTGCGACAGCCGCTATTTCTTTACGGACCTATGGCATTCCAGGAAACGCCTGTGCGCAGGCGTGCCCGTTTACGAAACCCAATATCTCCGTTATCGCAATGA

Transcript

BRAKERKRET00000022948

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q2YUU0	N-(2-amino-2-carboxyethyl)-L-glutamate synthase OS=Staphylococcus aureus (strain bovine RF122 / ET3-1) OX=273036 GN=sbnA PE=3 SV=1
D1GUM7	N-(2-amino-2-carboxyethyl)-L-glutamate synthase OS=Staphylococcus aureus (strain TW20 / 0582) OX=663951 GN=sbnA PE=3 SV=1
A7WX68	N-(2-amino-2-carboxyethyl)-L-glutamate synthase OS=Staphylococcus aureus (strain Mu3 / ATCC 700698) OX=418127 GN=sbnA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0043191 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00291 all species →	PALP	Pyridoxal-phosphate dependent enzyme	Family	Interproscan
PF02423 all species →	OCD_Mu_crystall	Ornithine cyclodeaminase/mu-crystallin family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan
IPR001926 all species →	Domain	Tryptophan synthase beta chain-like, PALP domain	Interproscan
IPR023866 all species →	Family	2,3-diaminopropionate biosynthesis protein SbnB	Interproscan
IPR003462 all species →	Family	Ornithine cyclodeaminase/mu-crystallin	Interproscan
IPR036052 all species →	Homologous_superfamily	Tryptophan synthase beta chain-like, PALP domain superfamily	Interproscan
IPR023401 all species →	Homologous_superfamily	Ornithine cyclodeaminase, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13812 all species →	KETIMINE REDUCTASE MU-CRYSTALLIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016639 all species →	Molecular Function	oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor	Interproscan
GO:0019290 all species →	Biological Process	siderophore biosynthetic 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
K05947	E2.4.1.217; mannosyl-3-phosphoglycerate synthase	EC:2.4.1.217	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 BRAKERKREP00000022948.1 across 29 RNA-seq samples of Hydra viridissima. 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.

29Samples

18TPM > 0

7Conditions

79.5Max TPM

23.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	8	19.31	79.47
Whole	6	6	31.92	46.06
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	22.85	22.85
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	34.09	34.09
symbioic hydra M9 strain · symbioic hydra rep1	1	1	34.19	34.19
symbioic hydra M9 strain · symbioic hydra rep2	1	1	43.07	43.07
unannotated	1	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	79.47
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	62.38
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	61.78
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	50.26
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	46.47
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	22.75
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	21.57
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	2.90
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	46.06
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	33.62
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	33.08
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	28.61
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	26.60
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	23.53
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	22.85
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	34.09
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	34.19
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	43.07
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636	0.00

Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM, StringTie quantification over 29 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.