Gene detail

Detailed information of BRAKERKREP00000014527.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047127519.1, sodium leak channel NALCN [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000014527

ATGCTTCATAATAACACCAAAGGGTTGCTCAGCCCTTCTCTTccaattaagaaaatatcacattcatcttctttaaatgaattacAAAATAAGAACAGAAATGAAGTAGAAAATAACcatattaacattaaaactgTGTTAAGCCTTGAGGGAGATAAGAAGATTACTTTGTCCACTCCAGAAACCCTACAGACTGTTCTAATGGGAGGAAAATCAACTTATGAAAGAGCATCATCTGTTGCTGAGCAACATGACATGCTTCAAAATGTTGTGGATATATTACAAGAAAATGTTGCAGAAAATATggatgaaataaaacaaacagatGTTCAAAATTATGATAATGATGCATATACAAGGAGTTTTTGGAAGAAGTTATGGTTCCAAATTATAATTCGTGTGTCTTGTGTTATCAGTGTAGTCTCAGTTTGTATGAATACTCCACAAACATTTGATGCTGTTCCCTCTCTAAAATACTTGACAATTGTGATTGATTTTATTACTGGTTTGATTCTTACATTCGAAGTAACATTAAAAGTATCTGCTAAAGGATTGATATTATCAAAGAATTCTTATTTACGTAGCCCTGGTAAAGTCTTTGATTTTGTGATGGTAGTTTGCATAATTGTGTCagttattttacagtttttggaaatcaaaaatgttttaccaaTAAACCAGATAgactatattttaatttcattcatGAGAGCTCCACGACCCTTGCTGCTACTACGTGTAATGAAACCTGTGTTGAATATCAGTTTGCCTAAGTCTGTATCATTGCGTTCTCTCAAACAAATTTGGAGTGTGTTACTCTTTTCAGCTTATTTTATGTCTTTAGCAGCTGTTATTGGGGTGCAAATGTTTGGAATAATGAAATCTTATTGTGTTAAAGCATCTGCTGATCCATTTAATACCACATATAGCGATTTTTTGATTCCAGCATCACGTTGCTCTAACAACTATAGTTATTCATTTAAGTGTCCTGAAGGTTTTGTTTGTAAAGctttgcattttgaaaaatttcgaCAAGATCGGAGATATTTTGAGCACATATTGACTGGACTTTTGACTGTTTACGAGGCATCCTCAATGGAAGGTTGGTCTTACATGATGTACGATGCAATGAAAACTCGTCATTTTGCTTTTGCAGTAGCCTACAATGTTGCActgattttctttattgcatggcttgttaaaaatgtatttattgctattattacaGAAGCATTTGCTGATCTTCGTATACAAGTAAATCGATTAAATAAcagctctaaaaaaaaaattacagatcAACGAGTGCTGCAAAAAATTGATGCTCAAATGGAGTTAGTTAGAATAGAACAGTTATTTCCAAAAAACTATGTGTCGCAATCACTTCATAAGTTTGTTAACATGACTGCATTTAAATGGttcatttatatttgcattttCACTGATGCTGTTTTCCAAGCttgtaacttaaatttaaaattaccttCACTTAATGTTATCTTTAcaattatatttgatatagAAGCAGTGTTAAAGGTGATTGCAATGGGACTTCCACGTTACTTTAATTCACTTAATTGTCGCTTTGAAGGTGCTTTATGTGTAGGTAGTACCTTTCTAGTAGCCCCACTTATGATGGGATATAAAGGGTTTGCTTTGGTCCAAGTTATGAGAGTGTTTCGATTAGTGTTGATATCTAATTCACTTACAGTGTTCCTAAAACGTATTCTTGGGAGTGGTAAGAAACTTGGAAATTTGCTCTTATTCACTCTAGCAGCCTTGGTCATGTCATCAGGTGTGGCAATGCAAATTTTCTGTGGGATTGGCAAATCAAGTGATGctaaagattttcaatttgGAGATTTCCCAAATGCTACTGTTGCAATGTTTCAAGTGTTTATGTCTGAAAACTGGAATGGTGTTATGAATGGACTTCTTTGGCAAGGTCAAAAAAAGTTCTCCTTTCTTGTGTTCATCACATTTATATGTTTTCATTTGCTTGTTGCAACTATACTTATTAGTGTGTTTGTTGCATTAATTCTCGATAATCTTGAGCTTGAAGAGGGAGTTAAGCTTTTGAAGCAACACAGACAAGGTGTTGAAGTTGCTGATACCCAAGAAGCACTTCCAGCTAGAATTCAGTGGTTTGAGAAGCTAAAACCTAGACCAAAGCTGGTAAGCTTAGATAACATGAATGAGTGCAGTCTACCAAAGGTACGAcaaagttttgttaacaagTTTATAGCATCTATTGAAGGCATTGAGGATGCAAATCAAATCATAGCACATGTTCCTAAAAAGTCATCTGTCAAATCCAAATCTTATCTGAATACTGAGTTCCAgcttagtttttttgaaaacaaaccCAATGAGTTAAATTATCTAACTCAATTGCGTAAGCAATCAACTGTCACTGCTTTTATAGCTGATGTGCATGTAAAAAGAATTTCCTATAAGGGAAGTGAAGTAGCAAATGGCAAATCAGcacatttaaaatctttaaaacataGTAATTCTCGGATCAGTCCAAGTTCTTCAAATGTATATACacctaaaaacaatttttctccAGGTTTTCGTCCAATGCTTGGAATTCGCCTTAGTAATCAgaaaatttcaactttgacAAGAGAAGACAAAGGAGCACAAAGTAAAAatggtaagaaaaaaaaagacattgatGTTGGGTTGATGAGGCAAAAGTTAGAAGAAGCCCATCGCAAAAAAGAATCCCAAATTGACTATCTTCGTGAAAATCATCCTACATTTGATAAATCTTTGTTCATATTTTCATCTAAACATCCTCTGAGAAtgtttattcataaaattgtGCATGCAAGGTATCGTGCTTTTAACACAGATGACAAAAGTATTCAAGTTGGTGCATTTAGCATTGATAGATTAAAACGATATTTTGGATCACAAACCTATCTGGATTGGGTCATGTTATTATTCACACAGGTTTCTTGTGTGGCCATGTTATTTGAAACAGGAACAATGAGAGTTTTTCACAATCCAGAGTACAGAGTATTATCAATTATTGaatatgtttttgtaatatctACATCTATTGAGTTGActctaaaaattattgctgATGGTCTTCTGTTTACGCCTAATGCTTTTATACAGGATTTTGGTGGAATTTTACATGTGTTCATCTACATTTTTAGCCTTACATATTTAGTATGGCAACCAAAAGAAATACCTCCTTTTTCAGCTGCTCACTATATATTGGCGTTACGTGCTTTACGACCTCTTCGAATTATTACTCTTGCTCCACCTCTACGGAAAGTAGTATGGGTACTAGTCAGTGgctataaagatatttttaaggtAGCTGTTCTTCAAGGTGTATTGATGTTTGTGTTTGCCAGTTATGGAGTCCAAACATTTGCTAACAAATTAAAGCGATGCAACGATgatagtattaaaaataaaagtgattgTGTTGgttcgttttttaaattagtagcATCACCTCGTAATTTAGAGGGGTTAAAGGGAAGCCAAACTAAGGTGTTAGTTCCACGAGCATGGTTGAATCCTCGCAATTTTGACTTTGACACTTTAGGTAATGCATTTCTTACTTTGCTTGAATTATTGTCTTTGGAGGGTTGGACTGACATTCGAGATACAATTCAACGTGAAGCAGGCTGGATAGGTATTTTTTACCCACATGCTTATGTAGTTGCTGCTTGTCTCTTGGGATTAACACTATTCATTGGTGTTATTGTCAGCAATTTTAATGAAGCAAAAGGTACAGCTTTGTTAACTGTTGAGCAAAAACGTTggaaagatttgaaaaaaaaactggaattAGCACAGCCACTTCATTTACCACCTCGGCCAAAAAATAGCTTAATAAGGGGAAAActttatgacttttttaacTGCAGATGGTACAACCGCTCATATGCTTTTATTCTATTAGTCAATGTTGGTACTCTTTTTCGAGGTCAATGGGAGCCAAATGATTTAGATGATTTATGGAAGGTATCACTAATATCAATTGCAATTATATGctgcataatatttttcatagatttaattttgaaaatttctgcCTATTCCTTCAAAGGATATTGGCTGAGTTGGAGAAATCGATTTGACTTTTTGTTAACCTTGTGTGGCCTTGTATTTTCTGTATGGACAATGTCAACATGTGACAATAGACTCTCATGTGAGGAATCTAAGCAATTTggagttgttatttttatcttaCGATTTCTTTCTCTTTCTGGCAAACACAATGACTTGCGCATGCTCATGTTGACAGTTGTTATGAGTTTAACAAAATGCTTCTATACTATAGGTGTAATGCTTATGATCATGGCCTGTTATGCGTTTGTTGGTGTTATCCTTTTTGGTTCTGTAAAACATGGTTTGGCACTAAATCAAGCAGCAAATTTTGAAACCAGTTGGAATGCTCTGCTACTTTTGTTTCGCATGACAACAGGTGAAGATTGGAATAAAGTAATGCGTGACGCCACTCTATATCCGCCTTATTGTAGGTTAGACGTTACAAAAGATTACGCATCCAGTAACTGCGGCAACCCTCGAGCAGCctactttttctttcattctttttaCCTCATCATTAActacattttcttaaatttatttattgctgttgttattgaaaatttctccattttttattcaactgaTGATGATCCTATTATGTCTCAACAAGATATTCGCAATTTTCAAGAAGCTTGGAACGcagaagataaagaaaatagcGGTTCAATAAGCGTTAAAAGAGCCAGGAAAGTCATTGAATCGTTAcgcaaaactttaaaattggaaaagtCAATTCATCCTCTTCTTTTCAAGTGCATGTCAGCAGAAGTGGAGAAAATAAGAAACgggaaaaacgtttttttccACGATCTTTTGTTTGTTGTCGCTTATAAGAAGATcgatataacaaaaaatcttcaacTGGAAGAAagGCTAGCACGTGCTGAATTAGATGATGGGATTAAAGAGGAAGTAGCTGCTGAAGTCATAAGAGAATGGATAGTGCGTGTCATTCACCAAAACAAGATAAAGGTGAAATCGCAACtcgaaaagaaaatttcagGAGCATCAGGTGATACTCGACTAACTGAAGGCAGTTTGAAGAGTGATTTTGACGGTGCTTCTGTTTCCTCGTTTCCCAACCCGTCCTATCCGAATCCTATATTCGACATGCAAGCGTCGTTTGATGGTCTCAGAAAAAGGAAACAGGGAATGAGCGAAACGAAAGACGAACTTTATACATGGTGGGATTCTGCGATTGACGAAAACGAAGTCCTTTTGAAGCTTGattaa

Transcript

BRAKERKRET00000014527

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8BXR5	Sodium leak channel NALCN OS=Mus musculus OX=10090 GN=Nalcn PE=1 SV=2
Q8IZF0	Sodium leak channel NALCN OS=Homo sapiens OX=9606 GN=NALCN PE=1 SV=1
Q6Q760	Sodium leak channel NALCN OS=Rattus norvegicus OX=10116 GN=Nalcn PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007069 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00520 all species →	Ion_trans	Ion transport protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027359 all species →	Homologous_superfamily	Voltage-dependent channel domain superfamily	Interproscan
IPR002077 all species →	Family	Voltage-dependent calcium channel, alpha-1 subunit	Interproscan
IPR028823 all species →	Family	Sodium leak channel NALCN	Interproscan
IPR005821 all species →	Domain	Ion transport domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46141 all species →	SODIUM LEAK CHANNEL NON-SELECTIVE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005245 all species →	Molecular Function	voltage-gated calcium channel activity	Interproscan
GO:0005891 all species →	Cellular Component	voltage-gated calcium channel complex	Interproscan
GO:0070588 all species →	Biological Process	calcium ion transmembrane transport	Interproscan
GO:0005261 all species →	Molecular Function	monoatomic cation channel activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0032224 all species →	Biological Process	positive regulation of synaptic transmission, cholinergic	Interproscan
GO:0032230 all species →	Biological Process	positive regulation of synaptic transmission, GABAergic	Interproscan
GO:0005216 all species →	Molecular Function	monoatomic ion channel activity	Interproscan
GO:0006811 all species →	Biological Process	monoatomic ion transport	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	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
K21863	NALCN; sodium leak channel non-selective protein	-	Ion channels	ko04040	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000014527.1 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

8TPM > 0

7Conditions

14.6Max TPM

3.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	1	0.81	14.60
Whole	6	4	8.02	14.47
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	11.46	11.46
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	12.17	12.17
symbioic hydra M9 strain · symbioic hydra rep1	1	1	7.51	7.51
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	14.60
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
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	14.47
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	12.19
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	11.05
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	10.40
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	0.00
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	11.46
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	12.17
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	7.51
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.