Gene detail

Detailed information of BRAKERKREP00000022709.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: KAG0323236.1, hypothetical protein BGZ97_011768 [Linnemannia gamsii]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000022709

ATGAAACTCTTGGTAATCGGCTCGGGCGGCCGCGAACATGCCCTCGCCTGGCGGCTAGCGCAGTCGCCGCGTGTCCATAAAGTGTATGTCGCACCAGGTAACGGCGGCACGCAATTGTCCTCCCATTTGGAAAACATCCCTTATACGCAGCTGGAAGAACTGGCGGATTTTGCGCAACGCGAAGCTGTCGCGCTAACGGTGGTCGGTCCAGAGGCGCCGCTGGCAGCGGGCGTGGTCGATCTATTTCGCGCCCGTGGCCTGCAAATTTTTGGGCCCACGCGCGCGGCGGCACAGCTGGAAAGCTCCAAGGACTACGCTAAGACCTTTATGGTGCGGCACCACATCCCCACCGCCCGCTATCAAAGCTTTACTGAGCCACCCGCGGCCCATGCTTATATCGACCAAGAAGGCGTGCCTATCGTCATCAAAGCCGATGGCTTAGCAGCGGGTAAAGGCGTGGTGGTAGCCACTACGCTAGATGAAGCGCACGCTGCTGTCGAAGCCATGCTGGGCAAGGGCACGCTGGGCGACGCGGGCGCGCGCGTAATCGTTGAAGAATGCCTACAGGGAGAGGAAGCCAGCTTTATCGTCATGTGTGACGGCCGCAATGTGCTGGCGCTGGCTACTAGCCAAGATCACAAGCGGTTGCAAGATGGCGATGTCGGTCCCAATACAGGCGGCATGGGCGCCTATTCTCCCGCCCCAGTCATCACACCCGAGCTGCATCACCGCATCATGCGAGAGGTTATCCTTCCCACGGTGCAAGGCATGGCGCGCGATGGCATTCCTTATACGGGATTTTTGTACGCGGGTTTAATGATCGGCCCGGGCGAAGACTCCGACCGACCGATCAAAACGCTGGAGTTTAATTGCCGCCTGGGTGATCCTGAGACCCAACCTATTATGATGCGGGTCAAAAGTGATTTGCTGGATGTGCTTGAGCATGCCGTCAATGGCACGCTAGACCAAGCCGAGATCACCTGGGACCGCCGGACTGCGCTGGGTGTTGTACTGGCGGCGCATAATTATCCTGGCACACCTCGCACAGGCGACGTCATCGCAGGCTTGCCGGCGCAGCAAACCGAAGATTGCGTCATCTTTCATGCGGCTACTCGAGTCGACGGCCAATCAGTCCACACTGCAGGGGGCCGCGTACTGTGTGTGACCGCCCTGGGCGAATCCGTGCGTTTAGCGCGTGAGCGCGCTTATGAAGCCGTGGCCAGCATTCATTTTGACGGCCGTCACGCTCGCGACTTCTTTATCGACCTGCAATCACGCATTGTTGCCGCGCTTGCAAAAGCAGAAGGCGTGGCGTTTCGTAGTGACCGCTGGGTGCGGACCGAAGGCGGCGGCGGACACTCGCAATTACTAGAGGGTGGCCAACTGTTAGAACGAGCCGGCGTGCTTTTCAGCCATGTCAAAGGCGCCAAGTTGCCGCCCTCAGCTAGCGCGCACAGGCCAGAACTGGCAGGCAGGCCATGGGAGGCCATGGGCGTCTCTCTCGTATTGCATCCCCGCAATCCTTACGTTCCTACGGTGCACATGAATGTGCGCCTGTTCATGGCTGAGGCCAGGTCGGAACACGACGAGACAGATGTGTTTTGGTTTGGCGGTGGCATGGACCTTACCCCCTATTACCCCTTTTTGGAGGACGCGCGACATTTTCATCAAGTCTGCAAAAATGCGTTGGACGCGCATGGCGTCGATTACTATCCCCGCTATAAGCGCTGTTGCGACGACTATTTCTTTCTTAAACACCGCAATGAAACTCGGGGCATAGGCGGCGTATTCTTTGACGATCTCAACGAACCTAGCTTTGATACCGCCTTTGCGCTTACGCGCTCGGTGGGCAATGCCTTTCTGGACGCTTACCTACCGATTATGCAACGTCGCTGCGCCACGCCATACGGCCAACGTGAGCGCGACTTTCAAGCTTATCGGCGTGGACGCTACGTCGAATTCAATCTCGTGTTCGACCGTGGCACGCTGTTTGGCTTGCAATCAGGCGGACGCACCGAATCCATTCTGCTTTCTATGCCACCCATAGCCCAATGGCGCTACGATTGGCATCCCGAGCCGGGCACGCCAGAAGCCCAATTGAGCGAATTTTTGACCCCGCGGGACTGGACGTGA

Transcript

BRAKERKRET00000022709

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8XXC4	Phosphoribosylamine--glycine ligase OS=Ralstonia nicotianae (strain ATCC BAA-1114 / GMI1000) OX=267608 GN=purD PE=3 SV=1
Q7WL80	Oxygen-dependent coproporphyrinogen-III oxidase OS=Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) OX=257310 GN=hemF PE=3 SV=1
Q7W7U0	Oxygen-dependent coproporphyrinogen-III oxidase OS=Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253) OX=257311 GN=hemF PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003796 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01218 all species →	Coprogen_oxidas	Coproporphyrinogen III oxidase	Family	Interproscan
PF01071 all species →	GARS_A	Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain	Domain	Interproscan
PF02844 all species →	GARS_N	Phosphoribosylglycinamide synthetase, N domain	Domain	Interproscan
PF02843 all species →	GARS_C	Phosphoribosylglycinamide synthetase, C domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016185 all species →	Homologous_superfamily	Pre-ATP-grasp domain superfamily	Interproscan
IPR036406 all species →	Homologous_superfamily	Oxygen-dependent coproporphyrinogen III oxidase superfamily	Interproscan
IPR037123 all species →	Homologous_superfamily	Phosphoribosylglycinamide synthetase, C-domain superfamily	Interproscan
IPR001260 all species →	Family	Coproporphyrinogen III oxidase, aerobic	Interproscan
IPR020559 all species →	Conserved_site	Phosphoribosylglycinamide synthetase, conserved site	Interproscan
IPR011054 all species →	Homologous_superfamily	Rudiment single hybrid motif	Interproscan
IPR000115 all species →	Family	Phosphoribosylglycinamide synthetase	Interproscan
IPR020561 all species →	Domain	Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain	Interproscan
IPR011761 all species →	Domain	ATP-grasp fold	Interproscan
IPR013815 all species →	Homologous_superfamily	ATP-grasp fold, subdomain 1	Interproscan
IPR020560 all species →	Domain	Phosphoribosylglycinamide synthetase, C-domain	Interproscan
IPR020562 all species →	Domain	Phosphoribosylglycinamide synthetase, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43472 all species →	PHOSPHORIBOSYLAMINE--GLYCINE LIGASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004109 all species →	Molecular Function	coproporphyrinogen oxidase activity	Interproscan
GO:0006779 all species →	Biological Process	porphyrin-containing compound biosynthetic process	Interproscan
GO:0004637 all species →	Molecular Function	phosphoribosylamine-glycine ligase activity	Interproscan
GO:0009113 all species →	Biological Process	purine nucleobase biosynthetic process	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0046872 all species →	Molecular Function	metal ion 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
K01945	purD; phosphoribosylamine---glycine ligase	EC:6.3.4.13	Purine metabolism	ko00230	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000022709.1 across 29 RNA-seq samples of Hydra viridissima. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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

0TPM > 0

7Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole body	18	0	0.00	0.00
Whole	6	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep1	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00	0.00
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
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636

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.