Gene detail

Detailed information of BRAKERKREP00000014474.1 in Hydra viridissima

Genomic Location: QPEY01000082.1:421845...427831
NR annotation: XP_047127537.1, NHL repeat-containing protein 2 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000014474

ATGGACTTCAATTTGATCAGTTCAAGAAGTATAGAGTACTTAGATGCTGTCAAAACAAAACCAgctgattttgaaaaactgtCTCAGGTGTTTTTAGAGGAGATGGAATCTTGCAACATTAAAATGcctgaatttgaaaaaacttttcagtggttaaacataaaagaaaatttatcatttaacaaaaatctgaAAGGGAAACTCTGTGTGATGGACTTTTTCACTTATTGTTGCATCAACTGTTTGCATGTTTTACCagatTTGCACGCTCTTGAAGAACGTTTTACTGTTCAAGATGGTCTTGTAGTTATAGGAATTCATTCTGCCAAGTTTAACAATGAGAAAATTTTGTCAAACATACTTAGTGCAGTAATTCGTTATGATATCTCTCATCCTGTTGTCAATGATGCTAATGCTACTCTATGGAATCAAATGAGCATTCAATGCTGGCCAACGTTAGTTATTGTTAGCCCTGTTGGTCAAGtccttttatatttgataGGAGAAGGTCATAggaattttttgttcaattttattgaacttGCTTTAAACAGATATAAAActaaagGTTTGTTAAGCAAACATGATCTTCCACTtcagttagaaaaaaatgcacTGAAGtgtaaaaatctaaaatatccTGGAAAATTGACAATATCTCCGTGTGAAAAAATGTTGGCTATATCAGACTCAGGCCATCATCAAATTGTAATAGTAGAAAAAAATGGCATAGTTGTTAAACGAATTGGTTCTGGTAATGCAGGGTTAAAGGACGGTGAAGCAAATGTCTCTCAATTTAATTCTCCCCAAGGATTGGCTTGGTGCGAGAATGCTATTTATGTAGCTGATACAGAGAACCATTCTATCAGAGAGataaatgtTACAACGTGGGAGACGAAGACAGTTGTTGGTATTGGAAAGCAAGGTGTAGATAAAGAGGGCGGCAAAGAAGGGAGAGATCAAGAAATAAGTTCACCATGGGATGTTGTAGTTGGGCCTTCCCCTgGTTTTGATGCAACAGATTTTCTGAATAACTGTCTGTACATCGCAGCTGCTGGCACTCACCAGATTTGgtgttactttttaaaagatggtaCATGGCTGAAAAAAGGACATCAAAAAAAAGGCATCTGCTTACGATTCGCTGGTAGTGGTGAAGAAGAAAATCGTAACAACAGTTATCCTGTTAAAGCTTCTTTCGCGCAACCATCAGGTTTAACGGTTGCTAATGTAAAAGAGCAACCGTTACTTTATGTAGCAGACAGTGAAAGCAGTAGTATCAGAagtatagaaataaaaacaggCGCAGTGAAGGCGTGTGTTGGTGCAGATAGAGACCctacaAACTTATTTGCTTACGGTGATGTTGATGGGAAAGGTTTAAATGCCAAACTTCAGCATCCTCTCGCTGTAGCATCTGCTGATGGCCATTTGTATATTGCTGACTCCTACAATCACAAgatcaaaGTTGTTGATCTGTTAGATCTTTCTTGTACCACATTAGCTGGTAGTGGTAATGCAGGTTTGAAAAATGGAGACTTTTTATCAGCCGAATTCAATGAGCCATCTGGCATATTGTGCCTCGCCGAAGCAATTTATATTGCTGACACTAATAATCATTCTATTCGAGTTCTTGACCTGTTAACTAATTCTGTTTCCACGtTAGAAGTTCGGGATGTTGACCAAAGTGATAGTGCTCCATCAGATACACCTAAGCAATTGACAAATAAGTCTTTAGTTGGTTCCAGGGTATCTGTAACTACTTTAGATAATTTGAAATGTAATCTAAGCAATCAGGCAAGCTATTCTATCCAAGTGATTCTTCCTGAGGGATTTCATTATACAAACGAAGCTGATAGTAAATGGCAACTCACTGTATATTCATCCTCAGAAACAGaattgatTTTCAAAACGGGAGTTTTGGATGATGAGGAAGTAAAGGTGACGTTGCCATCTGATTCTTCTTCGATTCTAATAAAGctcGAGCTATTGTTGTTTGTGTGTTCTGAAAATGGTTTTTGTCATATGAAGCAATATATCATTCATCAAACTTTGCTGAACGAGCTTAATGCAGACGAAAATTCAATCTTCGTCTATAGGAGTATATCCATAAAGTATAGAtgccatttgtaa

Transcript

BRAKERKRET00000014474

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8BZW8	NHL repeat-containing protein 2 OS=Mus musculus OX=10090 GN=Nhlrc2 PE=1 SV=1
Q8NBF2	NHL repeat-containing protein 2 OS=Homo sapiens OX=9606 GN=NHLRC2 PE=1 SV=1
A4IF69	NHL repeat-containing protein 2 OS=Bos taurus OX=9913 GN=NHLRC2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006177 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13905 all species →	Thioredoxin_8	Thioredoxin-like	Domain	Interproscan
PF01436 all species →	NHL	NHL repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045302 all species →	Domain	NHL2, NHL repeat domain	Interproscan
IPR012336 all species →	Domain	Thioredoxin-like fold	Interproscan
IPR001258 all species →	Repeat	NHL repeat	Interproscan
IPR011042 all species →	Homologous_superfamily	Six-bladed beta-propeller, TolB-like	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46388 all species →	NHL REPEAT-CONTAINING PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein 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

No KEGG orthology assignment for BRAKERKREP00000014474.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000014474.1 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

10TPM > 0

7Conditions

25.8Max TPM

3.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	1	0.02	0.28
Whole	6	6	14.15	25.78
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	0.71	0.71
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	0.54	0.54
symbioic hydra M9 strain · symbioic hydra rep1	1	1	1.00	1.00
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	TPM
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	0.28
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134053	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
SRR21134056	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
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134061	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
SRR21134064	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
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	25.78
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	22.82
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	20.91
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	10.04
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	4.40
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	0.96
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	0.71
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	0.54
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	1.00
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.00
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.