Gene detail

Detailed information of XP_066931237.1 in Clytia hemisphaerica

Genomic Location: NW_027104377.1:409741...431505
NR annotation: XP_027055464.1, chloride channel protein 2-like [Pocillopora damicornis]
Species Clytia hemisphaerica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

XP_066931237.1

ATGGGAGAAGAGGCACCTCCAAAGTATTATGGATATGAAGAAAATCTTATGCATGGTCGATATAACTCGTCCATGGCAGATTACACCAAAGAATATTCGAAAAAACTGAAATACAATACAGAAGATGACGACCTCATCAGTGAATTTGACGCTGAACACAGCATGAGATCATATTCACAATCTAGAGAAAGGTCTTGCTGGAGGCTATCATATCATTGGAAGAAAATAAGGCCTGTACTGGCAAACGACTACAGCTTTTTATTGATTCTTGGTATTCTAATGGCTTTGATCAGTTTTGGTCTAGATTATGTCATTCAAAAGTTTCAACTAGCACAAATATTACTTTACAAGATGGTGGCATTCAGTACAGTTTTACAGTACATATTATGGGTTGGGTTCCCTCTACTTCTTATATGCTTCAGTGTTGGTTTCGTTCACCTGGTATCACCACACGCTATAGGTTCTGGTATTCCAGAAATGAAGGTGATCTTAAGAGGGACGGTCCTCAAAAGATATTTATCTTTTCAAACGTTCATTGCGAAAACTGTTGGCCTAATGACGGCATTGGGCAGTGGTATCCCCATTGGGAAAGAGGGTCCCTTTGTGCATGTTTCAAGTATTGTGGCTCGAATGTTGAGTAAATTTATCAAAGGCTTCCATGGTATTTACGTGAACGAAGCTAGGAATGTTGATATGTTAGCCTGTGCTTGTGCTTTGGGTGTATCAAGTAGCTTTGCTGCACCCATCGGAGGTGTATTGTTTGCTATTGAAGTCACATCGACATATTTTGCAGTGCGGAACTATTGGCGTGGCTTTTTCACTGCTGTATGCGGTGCTTTTATGTTTCGGTTGCTTGCTGTGTTAGACTCTACTGAAGAAACGATCACTGCTTTGTTCAAAACCACTTTCAATATTGATTTCCCTTTCGATGTGCAAGAATTTGTGGCCTTTGGTTTTATTGGGTTGACCTGCGGACTGGCTGGTGCACTGTTTGTGTACACACACCGGAAAATTGTCGATTTTTCTCAACGCCACGAAGCTTCCAAATTCAACCGGTTTCTTGCAAAAAGCCGCTTCATTTATCCAGCAATGATTGTGATTGTTGTATCGACACTTTCATTTCCCAAAGGCTTTGGTATGTTCATGGCTGGGCAGTTGACGCCCAAAGAAGCTGTAGTCCAACTGTTTTCCAACTCCACGTGGACAAGCAACCCAAGCAGTGACAGCGAAAAATATTTGTTATATTGGAGGACTGAATACAGCAATGTTTACATGACACTTGTCATCTTCATTCTTGTAAAGTTCATATTGACGGCACTTTGCATCGCGTTGCCGATCCCTGCTGGTGCTTTCTTTCCTGTATTTGTCATTGGTGCAGCATATGGTCGTTTAGTAGGTGAATGTATGGCCACATGGTTTCCAGATGGTATTCGTTCAGGATCGGGTGCTTCATCACCAGTACTGCCTGGTGGATATGCTGTTGTCGGTGCGGCAGCGATGGCGGGGGCAGTGACGCATACGATATCCACCAGTGTTATTGTGTTCGAGTTGACTGGACAAATCACTCACATTCTACCTGTCATGGTTGCTGTACTGATTGCAAATGCTGTCGTTCAACCTTTGCAACCGTCTATATACGACAGCATCATTGAAATCAAGAAACTTCCTAATATTCCTGATATCAAAAGAACCAGACATTACAATGTGTGTGCAGGAGACATAATGCAGACGAGCATTCTTTACACCAGTATGACCGGCACATATATGGCCATCCGTGATCTACTGAAGAAATCTCCGCACACTTCCTTCCCGCTCGTCGACAAACCAGAGGGTATGATTTTGTTGGGGAGCGTACGAAGACCACAATTAGAATGGATGTTGCAAAGACATTTGTTGAACGGTCAAATGAGGAACGATAACACTGACGGACCAGATGGGAACGCTCGGCACGCTTCAGTTCATTTTTCATCCGGTGGTGAGGTATCCATCAAGAACCTTCAAGCTCAACAACGTCCGAAAAAGAAAACTTTTGGTAGCAAACTCAAAACTGGTACCACCGCACATCCAGTATCTTTGCAACGATTATTTAATACGAGTACATCAGAAATGGGTGAATCCGTTGCTACGCATGACTTCAGTGTTGATAATTCTCAGATTCCACAATGGGAAATGGAGTTACTTTTGGAGCAAGTTGATTGGTCAGAATGCCAACTCGATCCAGCCCCATTTCAACTGGTGGAGAAAACATCCCTGTATAAAGTACACAAATTGTTTTGCTTGTTGAATCTAACACACGCGTATGTGACTACTCTTGGACAGCTAGTTGGAATTGTTTCTTTGAATGAGGTTCGCGATGCAGTTGAAAACGAGCGTAAATTTATCGAGCGGCGCTTGACCCGCTTACACAGCGGCGGTGACGGCCAAGATATTTACTTTGATGACGGCCAATCACAATCTTCCATGGAGACGAAATCAAGAGCGTATACAGAACCTGCACATTCTATTACTGGTGAATCTGTCGGTGCGATGTCTTTACCTGCTTTCAGCAGCCGAAGATGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P35525	Chloride channel protein 2 OS=Rattus norvegicus OX=10116 GN=Clcn2 PE=1 SV=1
Q9WU45	Chloride channel protein 2 OS=Cavia porcellus OX=10141 GN=CLCN2 PE=1 SV=1
Q9R0A1	Chloride channel protein 2 OS=Mus musculus OX=10090 GN=Clcn2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004432 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00654 all species →	Voltage_CLC	Voltage gated chloride channel	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050970 all species →	Family	Voltage-gated chloride channel	Interproscan
IPR014743 all species →	Homologous_superfamily	Chloride channel, core	Interproscan
IPR046342 all species →	Homologous_superfamily	CBS domain superfamily	Interproscan
IPR001807 all species →	Family	Chloride channel, voltage gated	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45720 all species →	CHLORIDE CHANNEL PROTEIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005247 all species →	Molecular Function	voltage-gated chloride channel activity	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006821 all species →	Biological Process	chloride 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
K05011	CLCN2; chloride channel 2	-	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 XP_066931237.1 across 40 RNA-seq samples of Clytia hemisphaerica. 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.

40Samples

40TPM > 0

16Conditions

12.3Max TPM

5.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Mature medusa	5	5	6.38	8.45
medusa · Experiment Condition A1	4	4	2.66	3.13
medusa · Experiment Condition A2	4	4	2.80	3.63
medusa · Experiment Condition A3	4	4	2.72	3.89
Early gastrula	2	2	4.65	5.10
Planula 24hpf	2	2	4.87	5.24
Planula 48hpf	2	2	5.66	6.35
Planula 72hpf	2	2	6.20	7.70
Primary polyp	2	2	11.52	12.31
Gastrozooid	2	2	8.48	10.14
Gonozooid	2	2	9.12	9.90
Stolon	2	2	7.74	8.17
Baby medusa	2	2	7.40	7.93
medusa · Experiment Condition B1	2	2	7.80	7.84
medusa · Experiment Condition B2	2	2	4.03	4.39
Mixed	1	1	7.15	7.15

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
ERR2816251	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	8.45
ERR2816250	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	7.82
ERR2816249	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	6.02
ERR2816248	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	5.41
ERR2862245	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164	4.22
ERR3299476	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020	3.13
ERR3299478	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020	2.87
ERR3299475	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020	2.65
ERR3299477	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020	1.99
ERR3299479	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020	3.63
ERR3299480	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020	2.93
ERR3299482	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020	2.41
ERR3299481	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020	2.23
ERR3299484	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020	3.89
ERR3299483	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020	2.91
ERR3299485	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020	2.25
ERR3299486	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020	1.82
ERR2816230	Early gastrula	not recorded	Early gastrula	not recorded	ERP110164	5.10
ERR2816231	Early gastrula	not recorded	Early gastrula	not recorded	ERP110164	4.20
ERR2816233	Planula 24hpf	not recorded	Planula 24hpf	not recorded	ERP110164	5.24
ERR2816232	Planula 24hpf	not recorded	Planula 24hpf	not recorded	ERP110164	4.51
ERR2816235	Planula 48hpf	not recorded	Planula 48hpf	not recorded	ERP110164	6.35
ERR2816234	Planula 48hpf	not recorded	Planula 48hpf	not recorded	ERP110164	4.97
ERR2816236	Planula 72hpf	not recorded	Planula 72hpf	not recorded	ERP110164	7.70
ERR2816237	Planula 72hpf	not recorded	Planula 72hpf	not recorded	ERP110164	4.70
ERR2816239	Primary polyp	not recorded	Primary polyp	not recorded	ERP110164	12.31
ERR2816238	Primary polyp	not recorded	Primary polyp	not recorded	ERP110164	10.74
ERR2816241	Gastrozooid	not recorded	Gastrozooid	not recorded	ERP110164	10.14
ERR2816240	Gastrozooid	not recorded	Gastrozooid	not recorded	ERP110164	6.83
ERR2816243	Gonozooid	not recorded	Gonozooid	not recorded	ERP110164	9.90
ERR2816242	Gonozooid	not recorded	Gonozooid	not recorded	ERP110164	8.35
ERR2816245	Stolon	not recorded	Stolon	not recorded	ERP110164	8.17
ERR2816244	Stolon	not recorded	Stolon	not recorded	ERP110164	7.31
ERR2816247	Baby medusa	not recorded	Baby medusa	not recorded	ERP110164	7.93
ERR2816246	Baby medusa	not recorded	Baby medusa	not recorded	ERP110164	6.87
ERR3299471	medusa · Experiment Condition B1	not recorded	medusa	Experiment Condition B1	ERP115020	7.84
ERR3299472	medusa · Experiment Condition B1	not recorded	medusa	Experiment Condition B1	ERP115020	7.76
ERR3299473	medusa · Experiment Condition B2	not recorded	medusa	Experiment Condition B2	ERP115020	4.39
ERR3299474	medusa · Experiment Condition B2	not recorded	medusa	Experiment Condition B2	ERP115020	3.66
ERR2862244	Mixed	not recorded	Mixed	not recorded	ERP110164	7.15

Source: CnidoSite RNA-seq expression matrices (CHEMI_TPM, StringTie quantification over 40 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.