Gene detail

Detailed information of BRAKERKREP00000023319.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: KDD48239.1, penicillin-binding protein, 1A family [Bordetella bronchiseptica MBORD901]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000023319

ATGAGTAAGCCTGCACATTCCTCGAAAAAATCCCCTACCCCGCACCGCTCGTTCTTTTGGCGGTTTTGCGTGAAGACAGGCATTGTCCTGGCCGGCATAGCCTTATGCGGTGTTCTGTTGGCCGGCATGGCGCTGGCGCTGGCATGGCCTAACTTGCCTGACTTACGCGCCATGACAGACTACCGACCGCGGGTACCGCTGCGCATCTATACGGCTGATCAAATACTTATTGGAGAATTCGGCGAAGAGCGGCGCAACGTGCTGCGTTTTAACGAAGTCCCTGACATCATGAAAGCGGCTGTGCTGGCGGCCGAAGATGACCGCTTCTACCAACATAGTGGTATTGATTGGACGGGGGTGGTGCGCGCTGGTCTCACCAACCTCATTAATATGTCAAAGACGCAAGGCGCTAGCACCATTACGATGCAAGTGGCGCGCAACTTCTATCTCTCTTCGGCAAAGACCTATTCGCGCAAATTCTACGAACTGCTACTCACCTTCAAAATCGAATCCCAGCTCACCAAGGACCAGATCCTCGAGCTCTACATGAACCAGATTTATCTGGGGCATCGCGCCTATGGCTTTGCCGCCGCAGCACGCACCTATTTGGGTAAGCCCTTGGGTGAGATCACTGCGGCTGAAGCGGCGTTGCTGGCCGGTATTCCCAAAGCGCCCTCGCGCTTTAATCCTATTTCGAACCGACCCCGCGCCGAGCTGCGCCAACGCTATGTCCTGGGCCGCATGCTTTCTCTAGGGTATCTTACGAATGCTGAATACGAGCACGCCTTGGCCCAACCCATTATCATTAAATCGGCCGATGGCACGCCGGCCGGCGGCTATGCGGTTCATGGCGAATATGTGGCCGAATTAGCGCGCCAGTTGCTCTACAACATCTACCAAGATAACGTCTATACACGCGGTATCAACGTTTACACCACCGTGCGGGCCAAAGATCAAGAGGTGGCCTACCATGCCGTACGAAATGGTGTGTTGGAATACACTCGCCGCGCGCCTTATCCAGGTCCTGAAGATCAGCTCAGCATGCCGGCGGATATCGAAAAAAATGGGCAGGCGCTAGACGATTTTCTTGACGGCGTGTTGGACAAATATCCCGATAGCGGCAATTTACTCACCGCCGTGGTGTTGTCAGCCAGTCCCACTGAAGTGAAAGTGGCGCGCAGCTCCCGCGAAATTTATTCTATTACCGACAAAAAAGTCCTGGCTGTCGTGGCGCGTGCTTTAGGAGATAAGGTCAACCCGAACCAACGCCTTAAGCGCGGCTCCGTGGTCTACTTGCATAAGCTGGGCGACGGCTGGGAAATTATCAACCTTCCTGCTGTGCAAGCGGCGTTCGTGTCGCTTTCGCCTCAAGACGGCGACATTCGCGCCATGGTGGGCGGCTTCGATTTTTATCGTGGGAATTTCAATCGTGTTACGCAGGCTTGGCGTCAGCCCGGTTCCTCTATTAAGCCGTTTATTTACGCAGCGGCGCTAGAGCGCGGTTTGACGCCGGCGACACAGGTATCGGATCAACCGTTCGAGCTTAGCGCGGCGCAAACGGGTTCAAAAGCCTGGAATCCTAAAAACTACGGCGGCCAGTACGAGCCCATGCTTACCATGCGGCAAGGCTTATACAAGTCTAAGAACATGGTCTCGATACGTATTTTGCAGGCGATTGGACCACAGTATGCGCAGACCTATCTCACCCGCTTTGGCTTTGACAAAGCGCGTCAACCAGCGGTATTACCTCTGGCGTTGGGCGCAGGCTCGGTCACCCCGCTGCAGTTGGCAGGTGCCTACGCAGTGTTTGCCAATGGCGGTTATCGTGTCACGCCTTATCTTATAGACAAGGTCACCGACAGTAGTGGCAAGGTGTTGATGCAAGCCAAACCGGTGCAGGCGGGTGATGCGTCCATCCGCGCTATCGATGCACGCACCGCTTATGTCATGGATAATATGTTGCGCGGCGTGGCCACCTCAGGCACGGCGGCACGTGTACGAGCCACGCTCAAGCGTAATGACTTAGCCGGCAAGACCGGTACGACCAATGAGTCGGTCGATGCTTGGTTCTCCGGTTACACGCCTTCGTTGGTGGCCACCGCATGGCTGGGTTTCGACCAACCCAAGTCGCTCGGCGCGCGCGAGACGGGGGGCGGCGTGGCGCTGCCGATTTGGCTTAGTTATATGCAGGAAATGCTCAAGGGCGTGCCGGAAGAAAAAGAGCGTCCTCGCCCCGACGGCCTATTGGTGGAAAATggtgaattttattttgcagaaTTTCCGTCAGGGCAAGCCGTGGCGCGTTTAGGATTGCCGGCAGCTAGCGACTCGCTGGGCGATTTTTTAAACGCGCTGACGGACAGCGGTAATAGTGCGCCATCGGTGGCGCCGAACACGCAGGGTGGGCAAGCACCGTAG

Transcript

BRAKERKRET00000023319

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O87579	Penicillin-binding protein 1A OS=Neisseria lactamica OX=486 GN=mrcA PE=3 SV=1
P0A0Z5	Penicillin-binding protein 1A OS=Neisseria meningitidis serogroup A / serotype 4A (strain DSM 15465 / Z2491) OX=122587 GN=mrcA PE=3 SV=1
P0A0Z6	Penicillin-binding protein 1A OS=Neisseria meningitidis serogroup B (strain ATCC BAA-335 / MC58) OX=122586 GN=mrcA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0017708 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00912 all species →	Transgly	Transglycosylase	Family	Interproscan
PF17092 all species →	PCB_OB	Penicillin-binding protein OB-like domain	Family	Interproscan
PF00905 all species →	Transpeptidase	Penicillin binding protein transpeptidase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036950 all species →	Homologous_superfamily	Penicillin binding protein transglycosylase domain	Interproscan
IPR001264 all species →	Domain	Glycosyl transferase, family 51	Interproscan
IPR031376 all species →	Domain	Penicillin-binding protein, OB-like domain	Interproscan
IPR012338 all species →	Homologous_superfamily	Beta-lactamase/transpeptidase-like	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR050396 all species →	Family	Glycosyltransferase 51/Transpeptidase	Interproscan
IPR023346 all species →	Homologous_superfamily	Lysozyme-like domain superfamily	Interproscan
IPR001460 all species →	Domain	Penicillin-binding protein, transpeptidase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR32282 all species →	BINDING PROTEIN TRANSPEPTIDASE, PUTATIVE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008658 all species →	Molecular Function	penicillin binding	Interproscan
GO:0008955 all species →	Molecular Function	peptidoglycan glycosyltransferase activity	Interproscan
GO:0009252 all species →	Biological Process	peptidoglycan biosynthetic process	Interproscan
GO:0046677 all species →	Biological Process	response to antibiotic	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
K05366	mrcA; penicillin-binding protein 1A	EC:2.4.99.28 EC:3.4.16.4	Peptidoglycan biosynthesis and degradation proteins	ko01011	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023319.1 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.