Gene detail

Detailed information of XP_032234825.2 in Nematostella vectensis

Genomic Location: NC_064047.1:9548833...9554425
NR annotation: XP_032234825.2, pre-mRNA-splicing factor syf2 isoform X2 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032378934.2

GTTCTGGTCTTCCTGTGCTCTTTAACATTTTGTTGACGACCGCTGACCTCCACTAGtttcatttgaaaacaaaatggcgtccACACAAGATGATGATCAAGTTGCTGAAACGAGTAGAAATTCGAGTGAAGATGGCGAAGTGGGTGAAACAACCTCAACTGCGTCATCGACTTCTTCGTCGAAAAGCGCCGCCGAAAAACGAGCAGAGAGAATGAAAAGACTTCAGCAGTTGCATTTAAGACGTAACGAAGCTCGTAAAATGAACCACCAAGAAGTTGTCGAGGAGGACCGTAAAAAGAAGCTTCCAGCAAACTGGGAGGCGAAGCAGCGCCGCGTTGAGTGGGAACAACAGGACGACGAGGCAGCAGAGGCGAAGGGAGAGGACTTTGAAAGAGTCAAGATGCTTTCTATGACAGCCGATGAAGCAGAACGATTAGAgaggaaaaagaagaagagaaaCCCTGATCAAGGGTTTGCGGATTTTGCTCAAGCCCAGCAAAGGCAGTACAGTCGCTTGACCAAACAGCTGAAGCCTGACATGTCAGAgtacaagaaacaaaaagatGAGCTagGGGAGGCATTCACTCCATCCGTTGATAACTTAAGCTATGGGGGCGAAGGCAAGGTATCCGAAGCTGGAATTGACAGAATGGTTGCAGACCTAGAAAAACAAGCTGAGAAGAGGGCTAAGTTCAGTCGCAGACGCGCACACTATGATGACGCCGACATTGATTACATCAACGAGAGGAATATGAAATTCAACAAGAAACTTGCACGCTTCTATGATCCATTCACTGCTGAGATCAAGCAAAACTTGGAGAGAGGAACTGCTGTTTAAACCTTGAGTCTTTCACTAAGCAGTGACACCCTGAGTGTGTAGGCATGTTCAGTTGAAGGCACATGCACAAGGCTGATAACATCAACAAGAGAAACATGAAATTCCACAAGAAATTGCACCCTTCTATGATTTCCTTACTGCTAAGATCATGCTAAACTTAGATAGAGGAACTACATTTcaggccgtagcaggcctcgaaatattggggggcacaatacagaaatattaagaaaatattgggggcacagccaagacccaactggtcatttccttataatatttcaaaatattagggggggcacgtgtccccagtgccccaccccctgctaagGCCCTGCTAGTCCCTTAGGGTTCCATTTGTCCCCAACGTCCTTGATCCCAATGAATGCTGCCTACAGTAAGTAATGGCATCAAAAGTGGGCCGTGTTGAGGGCCAGCTTTGTAGCCAGCTTCAAAAGCCAACCTCAAATGCGAGTCCTGGGGTCATTTTAGATTTGTTTTACATTACATTGTCTTAAATTATATTCTTAGTTTAAAAGTTATCTAAAAATACTAatacaaaaatgtgttttgATTGTCTGAAGAGAAAAGGGTTTACTTGAAGGCAGTGAAGATGTTGCACAAGTTGCACAAATCTGATTTGCGCTTTTGGACACTTATAGTATAAGAAAGCAAAAACATATATTGGGGTAGGGAcactgtttaaaaaaatgcaaactatTTGTTAGCTTGTGAGGGGGCTTTAAAACAACATTCAGTCAATCAGTGTTGTAAGAACTTTTACTCATAATGACATATCTACAAAACTTCTAAGAATTACATTTCGAGATCGTGCCCTTAAAAatgttcatgctttgtttttaaatataaaatacttcTCAAACCAAAGTCCAATATGGCAACACCATCTCTGGTTATAAATACTTTGCTACTTGTGAGATAACATCTCATGATTGTATCATTAATACTTTTATAGCTTTGACATGACAGATTTTAGGATCTATTTATAAAAGACGTGTCAATCTGTTCTTATTACAGATATCCCCAAATACATTTAAAAGATGTTTATGCCCTTATTTTTCCTAccaataatgataacaaattTCAGCACCTTTCCAGAtaaggaataaaaaaatttcctAGGGCCAAATATCCAACCATGATGGTATTATGACTTCATATTTTTCCTGATTAAAAATTTTAAGATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8AVQ6	Pre-mRNA-splicing factor syf2 OS=Xenopus laevis OX=8355 GN=syf2 PE=2 SV=1
Q9D198	Pre-mRNA-splicing factor SYF2 OS=Mus musculus OX=10090 GN=Syf2 PE=2 SV=1
Q4QRB2	Pre-mRNA-splicing factor SYF2 OS=Rattus norvegicus OX=10116 GN=Syf2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007481 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08231 all species →	SYF2	SYF2 splicing factor	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013260 all species →	Family	mRNA splicing factor SYF2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13264 all species →	GCIP-INTERACTING PROTEIN P29	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000974 all species →	Cellular Component	Prp19 complex	Interproscan
GO:0071013 all species →	Cellular Component	catalytic step 2 spliceosome	Interproscan
GO:0071014 all species →	Cellular Component	post-mRNA release spliceosomal complex	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
K12868	SYF2; pre-mRNA-splicing factor SYF2	-	Spliceosome	ko03041	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_032234825.2 across 48 RNA-seq samples of Nematostella vectensis. 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.

48Samples

0TPM > 0

16Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole 6 week old aboral regenerate · regenerate 96hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 144hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 0hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 2hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate uncut	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 4hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 120hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 36hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 24hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 20hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 16hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 72hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 60hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 48hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 8hpa	3	0	0.00	0.00
whole 6 week old aboral regenerate · regenerate 12hpa	3	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
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 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.