Gene detail

Detailed information of BRAKERKREP00000022175.1 in Hydra viridissima

Genomic Location: QPEY01000341.1:39413...54124
NR annotation: XP_012562041.2, ATP-dependent translocase ABCB1 isoform X1 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000022175

atggttgatattgataaaaagaGGACCAATGAAAATGTGATTACCAATCAACATACTGATGACACTGTGTTGTtctcaaaacaaaatgttcttcaaaatgatttagaaaaaacgAACAATGAAGACAATGCCAGgttgTCTAAAAAAGAGGATGAAAAAACCGCTAccgtttcatttttttctttgGAACCAGTAATTGattgtttatcaaataatgGTGAAATAAAGAATAGCATCAATGGagaaattacattttcaaatgttcGCTTTAGTTACCCTTCAAGGCCAGAAATTATGATTCTTGATGGGTTGGACTTGGTAATAAAACCAGGATCTACTGTTGCACTTGTTGGAGAATCTGGATGTGGCAAAAGTACAATTGTCAAACTTGTTCAACGGTTCTATGATGTTGCAGATGGCTCTATCCAGTTTGATGGCCAAGACATAAAgagtttaaatttgaaaagtatgCGTGCAAATATTGGTGTTGTGAGCCAAGAACCTATTTTGTTTGACATGACTATTGCTGAAAACATACGCTTTGGTGCAATAAACAAAGTATCAAATAATGATATTGTAGATGCTGCAAAAAATGCCAATGCTCATGATTTCATTTCTGCTCTGCCTCAGGGATACGATACGAGGGTTGGTGAAAGAGGAGCTCACTTATCTGGAGGTCAGAAACAAAGAATTGCTATCGCTCGAGCATTGATCAGAAATCcaaagattttattgtttgatgAAGCAACATCAGCGTTAGATTCTGAAAGTGAAAAGATTGTGCAGGAAGCTTTAGACAAaGTCAGGAGAGGAAGGACAACAATAATTATTGCTCATCGTCTTTCAACAGTAAAAAATGCTGATGTTATAGTAGTTGTTAAAGATGGAAAAGTTGCAGAATTTGGAGCACATAAAGAGTTATTATCTAGAAAAGGTCTCTACTACCAGTTGATTTTAGTTCAGAAAAATCTGGAAGCAGAAGATTTAGAACTCTCTATTGATCTTAATGAAGAAATGGGTGATGAATTAATGGAAGGTTTTTCTGAaggcaacaaaaaaatggatttaacAGAAAAGATTCAGTCACAGATATCACGCTCACTTTCTGTTAGAGATAAATCAAAATCATCACTTTCTGTTGGAGATAAATCAAAATCATCAGTGtttgttatacaaaaaaaaaataagaagaaaaaagaaaaagaggatAAAGTTGAACCTGCTCCCATTactagaattttaaaattaaatgcaagTGAATTGCCATATCTTGTTTCAGGAATGATTTTTGCTGCTATAATTGGTGTATTCcctgttttattttctttaattattagtGAGCTAATCAAGaTATTTTCAAAGCCAGCTGATGTAATTCACattgaatctaaaaaatggTCCCTTTACTTCTTAGGATTGGGATTTCTTGATTttgttgggttttttttttcaAACTTACTATTTGGAATTGCTGGAGAAATTTTAACTCGAAGGTTAAGAAGAGAAGCTTTTACTGCAGTTCTGCGTCAAgatgcttcattttttgatgatcCAATGAACACAACAGGTGCTTTGACTGTGAGACTTACTTCTGATGCATCTGCAGTGAAAGGGGCAACATCTTCACGACTTAATAGCATGACACAGATAGTTGTAATGGGAATTACATCACTTGTCGTAGCATTCTACTATAGTTGGAAGCTTACCCTTTTACTGCTTGGTTTTGCTCCAGTTCTTTTAATTGCAGGCGCTGCacatatgaaaatatttttaaattttgctgcAGAGCAGAACAAGCATCTAGTTGATGCAAGCGCCTCAGCACAACAAGCCATTACAAATATAAGGACTGTAGCCTCACTGGGCAAGGAAGTTTACTTCattgatgaatttaaaaataaactttatggGCCACTCAGGAAATCGATTTGCAATTCCTTAGCTTATGGAGTAACATTTGGTCTATCTGGTTCAGTTATGATGTTAGCAAATGCTGCTGCATTTACCCTTGGTGGAAAACTTGTTCAAGATAAAGAATTGGGTTTTTCAGATATGTTCaaGGTTATTTTAGCAACTGTGTTTGGTGCACTCATTGCTGGTCAAATTTCATCAATGGCGCCAAACTTTGTAGAAGCAAAAGTTTCTGCTGCTCGCCTGTTTAAGCTTCTTGACCGAGTTCCAAAGATTGACTCATTTGAGAAATCTGGAGAAAATTTGacTTCAGCTCGAGGGGAAGTAGAGTTTGATGATGTCGAGTTTAGTTATCCTGCACGTCTTGATGCTAAAGTATTAAATAAGTTGtcacttaaaattaaatgtggTCAAAAAGTTGCTTTAGTTGGTTCATCTGGTTGTGGAAAAAGCACATGCATCGGTCTTCTTGAAAGATTTTACGACCCCCTCAGTGGTGTAATCAAAATTGACGGTGTTgacataaaaaagttcaacttgAAGTCATTGCGTTCATCTTTAGGGCTTGTTTCTCAAGAGCCGGTTTTATTTGCAAgaagtataaaagaaaatattacttatGGCTTAGAAAATGAGGTTAGCATGGAAGACATTGAGCTAGCTGCTAAAAAAGCAAACGTTCATGGATTTGTGTCCAACCTgccaaaaggCTATGAAACAGAGGTAGGAGACAAGGGTACTCTAATATCGGGTGGGCAAAAGCAAAGAATTGCTATTGCCCGTGCTTTAATTCGGAATCCAAAAATTATGCTACTTGACGAGGCTACTTCCGCCCTGGATTCTGAAAACGAAAAgAGATGGGTGTTTGCCTACCGACAAGATCGATTATTGCTTAATGTAAATACTAACAATGGAATTGAATGGCAAAATCAATGTTtcaaatacagttttttagaaagaagaAAGACTTCTTCCCTTACTGCTATGCTTAGTGTTTGTATTGAAGAATTTCTTCCACACAAGTATGACAGCTATGTTGATGAAAACAGAAGAGCAAACTCATCGTATCGAAAATACCATGAAAATATTCCTAATTATTTAACCAATCGACCACGACCTTTGGTTAATCATTGCATGAGAATGATTGACAAGTTACATGGTGTGGATTTATCAGGAGTAACTGCTTTGACATACCAACTTTATAGCGTTCCATCATTTCAGTTTAACAGTAGGCTTAAATACCAATGTTATCTTGGTGATGCAGAACATTTGCCAACTTGTAGTTGTCCATCTTGGTTCCGTAGTGCATATCTATGCAAGcacttttttgctattttcaaaaagcaaaatcttTCTTGGTTTGCTTTAGGTGCAGCTTACTGA

Transcript

BRAKERKRET00000022175

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P08183	ATP-dependent translocase ABCB1 OS=Homo sapiens OX=9606 GN=ABCB1 PE=1 SV=3
P21448	ATP-dependent translocase ABCB1 OS=Cricetulus griseus OX=10029 GN=ABCB1 PE=1 SV=2
P21440	Phosphatidylcholine translocator ABCB4 OS=Mus musculus OX=10090 GN=Abcb4 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000763 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00664 all species →	ABC_membrane	ABC transporter transmembrane region	Family	Interproscan
PF00005 all species →	ABC_tran	ABC transporter	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017871 all species →	Conserved_site	ABC transporter-like, conserved site	Interproscan
IPR003439 all species →	Domain	ABC transporter-like, ATP-binding domain	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR011527 all species →	Domain	ABC transporter type 1, transmembrane domain	Interproscan
IPR039421 all species →	Family	Type 1 protein exporter	Interproscan
IPR036640 all species →	Homologous_superfamily	ABC transporter type 1, transmembrane domain superfamily	Interproscan
IPR000210 all species →	Domain	BTB/POZ domain	Interproscan
IPR007527 all species →	Domain	Zinc finger, SWIM-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24221 all species →	ATP-BINDING CASSETTE SUB-FAMILY B	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0140359 all species →	Molecular Function	ABC-type transporter activity	Interproscan
GO:0016021 all species →	Cellular Component	membrane	Interproscan
GO:0042626 all species →	Molecular Function	ATPase-coupled transmembrane transporter activity	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0008270 all species →	Molecular Function	zinc 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
K05658	ABCB1, CD243; ATP-binding cassette, subfamily B (MDR/TAP), member 1	EC:7.6.2.2	CD molecules	ko04090	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000022175.1 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.