Gene detail

Detailed information of XP_066917536.1 in Clytia hemisphaerica

Genomic Location: NW_027103728.1:278045...301728
NR annotation: XP_047138817.1, dystrobrevin beta isoform X1 [Hydra vulgaris]
Species Clytia hemisphaerica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

XP_066917536.1

ATGACTGCATCGCATGATTTTGAAAGTATTGTTATCGAGTTGGAGAGTTACTATGTATCACTTAAACATACTGGCAAACGAAATAGTACCATAACCGCTGCTCTAGATAAGAAACTACACAGTGAAAACCGGGAAGAACGGGAAAATTTATTCGACGAAAATGATTACTTGTTAGCTGAAGACCCAACGTTCACTACCGATGGTTCAAATACTCGGGATTCGTTCATAGACGAGGATTATTCTCGATGTGGAATCGTTGAGCCGACAACCGACGAGGATTCTCCTGATGAATTTGATTATCCGACGAGCACTCTAGACAGTAAATGGTCGGGTTTCATACCGAAAACTTTCGTCAAATCCGATAAATCCGAAAGTGACATGAATCGGGAATCGGGAAACCGAGATTACAATTTAGCGAATTATTACGAATCTTTCACCGATCAATGTATTGCGAAATTAACGAAAGAAATCCACATGTCTCCAATGAAAGTTCAGAAATGTGGAAATGTTTTGATCGTTAGTCCTCCTCCCGATTTACCGCCTCCGTTACCACCCAAACGAAAAGCTCCGCCCTTGCCACCTAAAGGTGGACATGGCGTGATGAAGCGTTCAGAAACTTCTAGTACTTCGTGTATCATAGATCAATGCTCTTTGCATAAGAGTGGCGTGTATTCATCAAGATTGACTTTGCAACATTCAAGAAGTTCCTTGGATGAATTTTTGGACACTAGCGATGATAATAGAGCTGAGGTTTTGGACCAATTATCCCGATCAGAATCGAAAATTTTGACTAGACGTTCGTATTCAAAGACTGAGATTTTTACGGATGCCGACCACTCGTCGGATTACGACTCCTTGAGTGGTTCTGACGAATCAAGCGTCGATAAATTAGACACAATGGAGGATCTTTTGCTTCAGTTGGGAGATATTCAATTACTTCATCAACAGGGAGGGAATATTGATAAAGAGATGAAAAAAGCGAAGAAATCACGCCGTAAACTTCAATACGTCATGAGGAAGGAGACTCATTCAACATCTTTGAGACGCAATTTAATCACTGAACTGAACGCTATTAGAGATGATAGTAAGATTTGGTCTCTGGATCAATTAATGAATGACAAAGTCAATGAACATAAGGCTTTGTTTACTCAACAACAAGTTCACGTTCAACAGGACCACAAGGAAGAACAAACACAATGTCAAAAGATTAAAGACCGATTGTGTTGTAAACGTGATGACGGTTCACCACAAATCCTTAAACGTGATATCGATAACGTGTTGAATACATCAAATTTAATTGATCACTATGCGCTAACTGCACCAAAATTTGATCACGATGCGCCAGATTCACCAAAACTCGACAACGATGCGCTAGATGCGTCAAAACTTGATAACAGTGGTTCAATGAACCTTTCTGACCTCGTCAAGTCATCACCACAACTTCGAAAACTTCATATAAATACTGAAAGAAAGAAATGCAAGCAGAGCCAGCCTCTACAACATACTTCCTTGAATGAAGTTTCAATCTCGACTACCGCAGATTCTCACAATCAACATATCTACCAACAGATCGTTGATGGGCGCCGAGAAACCTATCTACAGAATAATGGAGATCAGTTCAATGAAGCAAAGGAGCACAGAGAGATTGATATACTTGTCAGTAATATCTATCAAGAAATTTTGGAAACTCAAAATGAACGAAAAGCCTTAGATAAACAGAAAAGTGATCAGGCAACTTGCCAAGGCTTTCAAAGTGATCAGGTGCAAAAGGACCAACAAGTTGCAATGCAGAACCAACGCTCCAAAACTCAACAAGAAGTATACTTACAGCAAATTGAAACGGATCGACAACGTCGAGAAGAAGTCTATGTTCAACAAAGATTTCAACAATCTCAACATCAGAAAATCGAGACTCAAAAAGTCAATGCTCAGCATCTTACATCCGAATCTCATAAAGTTGGAAAAAGTATTGAAACCAAATGTGTTCAACAATCTCAAATTCTCAGTCAACAAAATAAAGAGGAAACAACCCTTCGCCAGCAATTTAAAAATGTTGAATCGTCAACGAAATCAACAACACTTCATACAAAAATCCAATCAACAAAAAAATCAACAAAGAAAATCCATACGAAGAAATCGTGCGGTAAAACAAAGGTCACGACATTGGTCAATCAATCGTGTTATCGTCACCAGAATTCGACCCCTTTAACACGATTACGATTTTACGAATTCAAACGTCAGCGTCAAATCTCCTTACAGTTAAATCATAATCGGAGAAGTGAAGAGCAAAAAGCACTTCCCTGGATGGATAATACGCACGTTCGCGTCTACAAGAACGAACATAATGAATGGAACAACACGCCCTTGTTCCACCCTTTCTGGTATGAGTGTATGTCTCTCGCCCAAAAGAGAGAAGACGAGAAACAAAAGAGAGAATTTGTAGACTTTAAAGTATCTAAGGACGAGAGCGTACGTAAACACAACACGACGGCAACAGGGACACGTTCGTTGAGTTATTACAATCAAGCTGACGATATGATTTCAATATTCAAATATTTTTGTTCAATGAACGGCACTTTAACGAAAGACCATACCAATGCACTTAAAAAGTTCCTCCTTGATATGAGGAACAAAAATTTTGACGACATCAAATTGGCAACTTACAGGACTGCCGCTAAAGTATTTTTCATCCAAAAAACCTCTAAAATATACCTGGTTGACATTTACAACATTATCGAAGCGTTCCGTGAGAATGGGCTAAACACACTAGATTCTAAAGACGAAATCGACGAACCGAGGCTGGAATGCATAATTGCTAGTATTTATTACTCGCTTTACAAAAGGTTACCTGCCACACAAGATATCGATGTAGAAAAATCTATTCTCATCTTGACACAATGGATCATGCACGCTTACGATAGCGATGGCGTTGGACGTATTAGAGTATTATCCGTCAAAACAGCTCTCTCCACTTTATGCGAAGGAAGAATGGTCGACAAATTTAGATATATTTTCACTCAAATCTCCGAATCGAATGGAGTTTTGAACATGGCTAAATTGGATCATTACTTGCGCGACCTATTGACGCTTCCAAGTGCAGTTGGTGAAGAACCCAACTTTGGATACAGTGATGCTATCCTGGACTCTTTCTTCCATCCAAATGGTCCCTTGGATCGAAACACAACAAAGTTAGACGAATTTTTGGATGTCTTCCTGAGTGAGAAATCGAATGGAATATTATTCTGGCTGCATATGCTAAATAAAATCTCCAAAGCTTCTCAAGCGGAACACGAGACACAGTGTAAAGGTTGTGGAATCAAAAATTTTAGCGGGTTAAGATACAAATGTATGGAATGTTACAGCTATAATATGTGCCAAGATTGTTATTGGCGAGATCGGATCACAGGAACACATAAAGTTGAGCATACGTCACGAGAATTCAGTACCTGGAACAAGAACGACCGCGGAACATCAGTCCGTAAGAAGTTATTGTGTGCTCCTACCAAATCACAACACCAACGACTGCCCAATTATCCAAAAGAGCCTGAACTCAACAAAACACTCGACATGAGTAACATCGTACCACCTTTACCATCAGAACCGAACTCCCCGATGAGTACGCTGCAACGAACCCCCCGAACACCCCGAATGATGAACGGTAGCAACAGTCAGTATTCCACCTTACAACGTGGTATGTCAGGGGGTCAACAAAGCCAATTCTCCACCCTACAACGCAATAGAAAAACGTCAGATGGGCAATACAGTGGACCCCCGTCTCCAATGTCCAACATGCCAAGGAATGACGACGAACACGCCCTTATTGTTATGTACGCACAAAAACTGGCAACTGCACGAAACGAACAGGAAGCGAACTTGCGGAACAAAAAGCTTTCCACTTCTTCCGAACCTTCCAACCAACAAAAAGAAATCTTGACCAACCTCGAAGAAAAAAACAGATCTCTCTTGAATGAAATTCGCAAGTTGAAGCAGGAGCATGAAGAAGCCGTTAAAAATGCTCAACAAATGGGTTGTGATCCTAACCTGTTAACAGAACTCCGCGTTCTCCGTCAACGCAAAGACGAATTAGAGATGCGAATGTCCGCGCTACAAGAAACGCGGAGAGAATTGATGGTACAATTAGAAGGACTCATGAAACTCCTCAAGAACCATGAAATTTCGACCACGCCTCGCCAAATGAGGCGTACTGGAGGCGGAGACAATCCGCGTGACACGAATGATTTCCGGTCACCCAAAACCAGTGGAACTTCCACTTTGATGAGAGGTGTCAACGGAGATGTCAAAGAAGCGTTCGGTAAAACTTCAACCATCAAAGAAAACCAAGATCTTCGCGTAGATTTAATGAGCGCCGTTGATGACGTCACCAGTGCCATGGCAACCGTTGTTACGGAGTTAGCCAATAACCGGGGATCCTCATCATCTACGATGGAGCCTCACAACGAAGAAAACGATAATGTGGGGGAGAGGGATGAAAGAATGTCTTGGAGTATCAACGGACAAACTAATCGCAACTCGAACAGTGTAGTGACGTCATCGAACACGCAAGTTAGTGTTTATTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P84060	Dystrobrevin beta OS=Rattus norvegicus OX=10116 GN=Dtnb PE=1 SV=2
O70585	Dystrobrevin beta OS=Mus musculus OX=10090 GN=Dtnb PE=1 SV=3
Q9D2N4	Dystrobrevin alpha OS=Mus musculus OX=10090 GN=Dtna PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001875 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00569 all species →	ZZ	Zinc finger, ZZ type	Domain	Interproscan
PF09069 all species →	EF-hand_3	EF-hand	Domain	Interproscan
PF09068 all species →	EF-hand_2	EF hand	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR000433 all species →	Domain	Zinc finger, ZZ-type	Interproscan
IPR050774 all species →	Family	KCMF1 and Dystrophin	Interproscan
IPR015154 all species →	Domain	EF-hand domain, type 2	Interproscan
IPR043145 all species →	Homologous_superfamily	Zinc finger, ZZ-type superfamily	Interproscan
IPR015153 all species →	Domain	EF-hand domain, type 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12268 all species →	E3 UBIQUITIN-PROTEIN LIGASE KCMF1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0045202 all species →	Cellular Component	synapse	Interproscan
GO:0099536 all species →	Biological Process	synaptic signaling	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 XP_066917536.1.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_066917536.1 across 40 RNA-seq samples of Clytia hemisphaerica. 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.

40Samples

0TPM > 0

16Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Mature medusa	5	0	0.00	0.00
medusa · Experiment Condition A1	4	0	0.00	0.00
medusa · Experiment Condition A2	4	0	0.00	0.00
medusa · Experiment Condition A3	4	0	0.00	0.00
Early gastrula	2	0	0.00	0.00
Planula 24hpf	2	0	0.00	0.00
Planula 48hpf	2	0	0.00	0.00
Planula 72hpf	2	0	0.00	0.00
Primary polyp	2	0	0.00	0.00
Gastrozooid	2	0	0.00	0.00
Gonozooid	2	0	0.00	0.00
Stolon	2	0	0.00	0.00
Baby medusa	2	0	0.00	0.00
medusa · Experiment Condition B1	2	0	0.00	0.00
medusa · Experiment Condition B2	2	0	0.00	0.00
Mixed	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
ERR2816248	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164
ERR2816249	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164
ERR2816250	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164
ERR2816251	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164
ERR2862245	Mature medusa	not recorded	Mature medusa	not recorded	ERP110164
ERR3299475	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020
ERR3299476	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020
ERR3299477	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020
ERR3299478	medusa · Experiment Condition A1	not recorded	medusa	Experiment Condition A1	ERP115020
ERR3299479	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020
ERR3299480	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020
ERR3299481	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020
ERR3299482	medusa · Experiment Condition A2	not recorded	medusa	Experiment Condition A2	ERP115020
ERR3299483	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020
ERR3299484	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020
ERR3299485	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020
ERR3299486	medusa · Experiment Condition A3	not recorded	medusa	Experiment Condition A3	ERP115020
ERR2816230	Early gastrula	not recorded	Early gastrula	not recorded	ERP110164
ERR2816231	Early gastrula	not recorded	Early gastrula	not recorded	ERP110164
ERR2816232	Planula 24hpf	not recorded	Planula 24hpf	not recorded	ERP110164
ERR2816233	Planula 24hpf	not recorded	Planula 24hpf	not recorded	ERP110164
ERR2816234	Planula 48hpf	not recorded	Planula 48hpf	not recorded	ERP110164
ERR2816235	Planula 48hpf	not recorded	Planula 48hpf	not recorded	ERP110164
ERR2816236	Planula 72hpf	not recorded	Planula 72hpf	not recorded	ERP110164
ERR2816237	Planula 72hpf	not recorded	Planula 72hpf	not recorded	ERP110164
ERR2816238	Primary polyp	not recorded	Primary polyp	not recorded	ERP110164
ERR2816239	Primary polyp	not recorded	Primary polyp	not recorded	ERP110164
ERR2816240	Gastrozooid	not recorded	Gastrozooid	not recorded	ERP110164
ERR2816241	Gastrozooid	not recorded	Gastrozooid	not recorded	ERP110164
ERR2816242	Gonozooid	not recorded	Gonozooid	not recorded	ERP110164
ERR2816243	Gonozooid	not recorded	Gonozooid	not recorded	ERP110164
ERR2816244	Stolon	not recorded	Stolon	not recorded	ERP110164
ERR2816245	Stolon	not recorded	Stolon	not recorded	ERP110164
ERR2816246	Baby medusa	not recorded	Baby medusa	not recorded	ERP110164
ERR2816247	Baby medusa	not recorded	Baby medusa	not recorded	ERP110164
ERR3299471	medusa · Experiment Condition B1	not recorded	medusa	Experiment Condition B1	ERP115020
ERR3299472	medusa · Experiment Condition B1	not recorded	medusa	Experiment Condition B1	ERP115020
ERR3299473	medusa · Experiment Condition B2	not recorded	medusa	Experiment Condition B2	ERP115020
ERR3299474	medusa · Experiment Condition B2	not recorded	medusa	Experiment Condition B2	ERP115020
ERR2862244	Mixed	not recorded	Mixed	not recorded	ERP110164

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.