Gene detail

Detailed information of BRAKERKREP00000020156.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047134021.1, uncharacterized protein LOC124812063 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000020156

ATGACCAAACTACAATCTAAACCCTCGAAAACAAACACGGTAACTTTTGCGGAAAATGATACGCCCCCACTAAACGCATACAATATGACACCCGCCAACTTAGCCAACCCTGAAAGTGCAACCAGAGAAGTCGCTAGATTGAGACaagaattaaaacaattaaaattacgGCTCTCAAAACGACAAACTGAAGACCAGGCAATGCTACAAAACCACTACTCACCACCACAAAACCAACCCACCTGCTACAAGTGTCGCAATGTAGGTCATATAGCCAGATACTGCGACCAAGTCTTCCGAGATCCCCGGATTCCTCTATCTAATAACCCACCGCGGGAATTTTCTAACCATGGGCCTTCTTGGAGAAACAACGAAAATAACTATAACTCCAAATGGTCCACACCTCAACAAAACTATGATAGAAACCCACAGAACCACCTAGCGGAAAATAATTGGCAATATGATGAAAGACGATATAATGATAGGAGATATGACCAGAATCCAAAGAACAATATTGACAGGTCCCAAACAAAACCCCAGCATTTTAACGAAAATCCTAGACACCACCCGCCTTTAAACGTTTTAGAATCGAAATTCAACCAAAACACTTCATGTGATGAGAATTTAGTTGGTCACAATATCATAAGTCCTAACAAAACTATGAATTTTAGCTGCACTGATAGCACATTTACTTTGAGAGAAAAGAATGCTAACCCAATACCAAACCCACAAGTCATTTCTAGGACTGTCCACGATAACGATTGCAAGTTAACTAAcgatatttctataaaaatccCAAACCCAATCCAGGGACTTCAAGAGAAGAAAACTAACCCAATTATCCTCCCTGGAAATGATCAAAAAGATTCACAAATGGCTACAAATGGGCACTTATTAGGTCTTGAAAAGAAGAATGTCTTTAAATGCAATAATAGAGACAACAGAGCCGTAACTGCAATGGTCTCAAACCCCACCAACGAATCTTTTGAATTAGAAGCAGATACAGTCTTAGGTAATATATATACTGTGTTTTCAGATGAACATAATATAGAAGAGAAAAACCCAcatcattttattaatgataCCATACAAGACAATTATTCCATAGAACTGCACAGACAAATGGAATCGATAATTAAAGAAGACGTAATCGGAGgaacaaaacaatttattataaaagatgaaataaCATCAGAAAAAGAGGAAATTAAACGCCAACAAAGATTAGACCTCGAATTACTAGACAAGATTAACTACTTAAAACAAAGGATTATCCCTGACGATAAGAAAGAAGCGGCGCGATTATTAGTTGACATCAACCAATACTTACTCGACGAACATGATATACTCTACCACATATACAAACCGATTAACTTTAGAATCCAAAAGATCGATGGTAGCAAGGGTCCAACCGTTATTCACTCAAATAGACTCAAAAAATTTCTCGAACCggctaagaaaaaaacagcagACCAAAACCTTTCAGGACAGGAAAGTGTTCAAAAACCACAAACGGCTATCCAAAAATCGAACGAAGAACCTAGAAACACGGAAATATATGTAAATCAAAACAGCCAAAACGGTGAAGAAACAGATAAAACACTAACTCCCagtacaaaagaaaaaaaggattcACCAGAACCAAATGAAGataacatatttaaagttgACGAAATACTAAACCACAGAACACGAAGAGGGAGAAGAGAGTTCCTTATAAAATGGAAGGACTATGACGAAACGAATAATACTTGGGAGCCAGAAAACAACCTAAGTCCAGAACTAGTacgaatttattttaaacagcGTCAGGTATCACGTAAGGGCGGTGGAACTTCGTCCGACAGTTTACCCCGAAATGGCTTATTGACAACGTTTAACCAAATCCCTCATAGACGAAGAAAATACAGTGTTAATTATTTACTAACACAAATATTCGTGTTTTTCACATTAATAGCTCCAAATATTCTAAGTATTGACATTGGGCCTATATATGACTGCGCTAAAACCACACAAATGGGAATTTACGAATACCCCACAATTAAAAACTGCGAGCATCAAATGAATAAAGAAGATTAcgaattaaaaacttataccGCGGAGGTATTTCGTCACTCCCCAACTGTTTCTAAGTTCCCTATTTACCTTTGTACCAATTATAAAGTAACCTTAACATGtaatcatgaaaatatttttgtttcgaGTGTGAGATCTCGTAAAGAGAACGAAATACGAGTCCCGCATGAGCTTTGTCTTGCAATGGTATATAATCAAATTCTTAAGACTTCATTAATAAAGTTAAGAGAGCGCTCGCCGATCGAAAGTCTACGACATGTGTTTCACACTCTgtacaacagcaacaacaagaATAAGGACGATCTACCCACACCAATCGAAATCGTAAATATCGAACAACCCTTAATTTTCGAAATTGAAGAAGGACaatggaaaaacaaaatttctgaaGAATATAATTgccaaataattaaaacaaatatactaACCCAAGATCTGTTCGAAATTCGCCGGTTTCCCGCCCAATTAGTAGGCAATTCAAGCCACATTGAACAGCATGTCACTAACACAGAATGCCCGTCCAACATAgatcaaacttttaaagctgGAATTTGCTACATCAAAAACTCCTTAAAAGTTATTGTGTGGGAAGATCCTGAACACGACTACGAAGAAATCCATTCCCTTGGAATACATACTATACAACAAGCAGGCGAATACGTTCTAATCTCAAGTTTACAAGCTGGTGGGGCAATCCAACAATCACTTGATAGTCAAGATAGAACGATCCAACTAGACAACGGCCTGATCCTTcacaacaacaaagaaaattcaCAAAACCCCCTTCAGTTCTTGAACGACGCAGTTAGAGAATACGCCAGGTCGGTCGCAGACACAGTTGTTGCTCCACTTCTAGAGGCACACATAGCACAGACAATAATccatcaaaaacaaatcatgGTTAATGAATGGGAAAGACTTTgctttttgcaaaaagaaatatctaaACTTCAACACTGGATGATATCTACATTTCCAAACACCGCGTCAAGATGGATCCAACCAGAGGCCGGAGTTCTTGTGCATACGGTAGGCGATGCCCTGCAACTCGAGGAGTGCCATagaatatacaaatataaattgcatttggatcgaaaaattaatgaaacttGCTATTCGGACTTTCCTATATCGATAGCTCATGACAACACAACTCGGTTTTTACGGGTAATCGACCGTCACGCGGTTAAATTCAGTCCGAATATACCATGTAAAAGTAGGCCTTCAATTACATACCTAAAGGatgtaaacaataaatactATATTGTTACCGCAGATGGAACAGTTTCCACTGCAACATTAAACTCAAACACTATCAATGAAACGAAAGAAAtccacttaaaaaaaattaaaggatttaacgaaaaaattttaaccaaatcGCCTCATGTGTTAGAACCATACACcatgttaaacattttcaccTATGTTCATGATGCTAttcaagaaatcaaaaaactcCAGGTAGAACAAGGAGATGGAAACGTTCTACTTGGTATCGGAAGACCATTAGGCTCTACAATTGAGTCTCTCGCAAAAGGGAGCAGTTCAATCATCAAGACTATCGGTTCTTCACTACACGAGGTATTAAATGGAGTAGGAGATTTAGACGAGAAAGTTGTTGGAAGTTTTGGTTCAGCAGCAACTAACATTATACAAGCGTCTGGTACTGCCGTAAAAGACTCTACAACTGGTCTaggcaatttttttcatagcatATTGGGAGGAATAGGTGGTACAATAAAATGGACACTGCTGCTAAGTTTAAcatgttttatcatttatacgAACAAAACTGGTCTTATTAGACTTTGCATTCCCAAACCAAAACCAGTCCCTATTCAGTCTTCCCTTAACAACGCAGTAAATCAAAATACACCCCAAACAGCTAATTCAATCAACCCAATATCAATACTCCccgaagaaaaaacaattttgaaggAAACACCTAAAGTATGTTACGTAGACGTAGAACAAAAGGATTTAAAAGTTAGCAGACTAATGGCAATCTCAGAAATTAACTTGAAAGATGGTAATTGCAATTACGCCTTACAGACGATGGTAACCATCCACATGATGTCAACTGAACATCAAGTAAAAGCCCTAATTGATACCGGTTCCGTAGTTTCTGTTATTAATGCAGAcctctattttaaaataaagaatgaaGATTACCctttaaattctaaaagagACAACAGAACCCACCTTATATCAGCATCTAATCACAAAATACCAATCACAAGAGAAGATAACATCACCATCCAAATTGCTGATAAAGTATTCAATACGAAAGTTGTGGTAGCACCAAATATATCACATGATCTAATTTTAGGACTACCAACTCTGATACAAATTAAGGTAAAACTCGATTTAGGAGAAACTACTTTAGCCATTCATAATCAATCATGCGAAATGGAGGATTTACCAAATACAATGGGATTTCCTAAACTCGCCACACTACAACAAAAATGGTTTGGTATcacaataacaaaacaaaggATCACGTTAGCCCTAATCCTCATAGCTTTTGCTATGTCACTACTAATATCTAGCTTCATACTATTCCACCATATGACAAAAGTGTCGCGACAAGTTCAATTAGAAGCACAAGTATATTTTGACGGTAGAACGCACTATAAATTGAATACGAACTTATACATACATTTGCATGAAGAACACAACCATGCAAAGGCGGTGACTCTATTCCTGGAAATACCTATGTTGCTGCGCATGAAATCTGGACTACCAGCAAGATTGGTGATGGGATATATTCCAAATAATATAACGTACTTACCTTTTTCTGAAGAAAATGTTCATGACACCATACGACCGTGGCATTATGTAAAATGCCAACTGCTGCACAATACAACTACATGgaattga

Transcript

BRAKERKRET00000020156

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P05205	Heterochromatin protein 1 OS=Drosophila melanogaster OX=7227 GN=Su(var)205 PE=1 SV=2
P34618	Chromo domain-containing protein cec-1 OS=Caenorhabditis elegans OX=6239 GN=cec-1 PE=2 SV=1
Q8VDS3	Chromobox protein homolog 7 OS=Mus musculus OX=10090 GN=Cbx7 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0021546 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00385 all species →	Chromo	Chromo (CHRromatin Organisation MOdifier) domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051219 all species →	Family	Heterochromatin-associated chromo domain-containing protein	Interproscan
IPR000953 all species →	Domain	Chromo/chromo shadow domain	Interproscan
IPR001878 all species →	Domain	Zinc finger, CCHC-type	Interproscan
IPR021109 all species →	Homologous_superfamily	Aspartic peptidase domain superfamily	Interproscan
IPR016197 all species →	Homologous_superfamily	Chromo-like domain superfamily	Interproscan
IPR023780 all species →	Domain	Chromo domain	Interproscan
IPR023779 all species →	Conserved_site	Chromo domain, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22812 all species →	CHROMOBOX PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000122 all species →	Biological Process	negative regulation of transcription by RNA polymerase II	Interproscan
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0005721 all species →	Cellular Component	pericentric heterochromatin	Interproscan
GO:0006325 all species →	Biological Process	chromatin organization	Interproscan
GO:0035064 all species →	Molecular Function	methylated histone binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid 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

No KEGG orthology assignment for BRAKERKREP00000020156.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000020156.1 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

14TPM > 0

7Conditions

33.3Max TPM

7.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	4	2.09	15.17
Whole	6	6	20.47	33.29
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	18.75	18.75
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	10.35	10.35
symbioic hydra M9 strain · symbioic hydra rep1	1	1	9.85	9.85
symbioic hydra M9 strain · symbioic hydra rep2	1	1	21.94	21.94
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
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	15.17
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	12.99
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	6.18
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	3.27
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134051	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
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	33.29
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	24.69
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	21.46
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	21.13
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	13.93
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	8.33
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	18.75
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	10.35
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	9.85
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	21.94
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.