Gene detail

Detailed information of HSymV2.0_g09.16632_t1 in Hydractinia symbiolongicarpus

Genomic Location: HiC_scaffold_9:15504990...15514695
NR annotation: XP_002157642.1, SNW domain-containing protein 1 [Hydra vulgaris]
Species Hydractinia symbiolongicarpus · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5R7R9	SNW domain-containing protein 1 OS=Pongo abelii OX=9601 GN=SNW1 PE=2 SV=1
Q13573	SNW domain-containing protein 1 OS=Homo sapiens OX=9606 GN=SNW1 PE=1 SV=1
Q9CSN1	SNW domain-containing protein 1 OS=Mus musculus OX=10090 GN=Snw1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007118 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02731 all species →	SKIP_SNW	SKIP/SNW domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004015 all species →	Domain	SKI-interacting protein SKIP, SNW domain	Interproscan
IPR017862 all species →	Family	SKI-interacting protein, SKIP	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12096 all species →	NUCLEAR PROTEIN SKIP-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000398 all species →	Biological Process	mRNA splicing, via spliceosome	Interproscan
GO:0005681 all species →	Cellular Component	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
K06063	SNW1, SKIIP, SKIP; SNW domain-containing protein 1	-	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 HSymV2.0_g09.16632_t1 across 44 RNA-seq samples of Hydractinia symbiolongicarpus. 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.

44Samples

44TPM > 0

3Conditions

576.0Max TPM

369.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole embryo	36	36	350.86	568.77
Whole embryo · Triptolide 20 uM	4	4	473.22	575.99
Whole embryo · DMSO 0.5%	4	4	436.91	516.06

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR24482163	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	568.77
SRR24482162	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	553.00
SRR24482170	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	533.10
SRR24482168	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	512.20
SRR24482161	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	504.00
SRR24482175	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	492.92
SRR24482171	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	491.63
SRR24482166	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	463.98
SRR24482167	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	440.21
SRR24482172	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	428.59
SRR24482169	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	427.81
SRR24482165	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	426.13
SRR24482176	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	415.04
SRR24482173	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	398.86
SRR24482174	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	391.31
SRR24482153	Whole embryo	Whole embryo	7 hpf	not recorded	SRP436676	374.77
SRR24482177	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	347.62
SRR24482140	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	342.18
SRR24482145	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	322.35
SRR24482142	Whole embryo	Whole embryo	30 mpf	not recorded	SRP436676	313.84
SRR24482138	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	306.08
SRR24482133	Whole embryo	Whole embryo	6 hpf	not recorded	SRP436676	301.68
SRR24482143	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	294.02
SRR24482135	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	291.61
SRR24482134	Whole embryo	Whole embryo	5 hpf	not recorded	SRP436676	288.59
SRR24482141	Whole embryo	Whole embryo	1 hpf	not recorded	SRP436676	283.41
SRR24482136	Whole embryo	Whole embryo	4 hpf	not recorded	SRP436676	278.42
SRR24482137	Whole embryo	Whole embryo	3 hpf	not recorded	SRP436676	276.38
SRR24482144	Whole embryo	Whole embryo	Unfertilized egg	not recorded	SRP436676	274.66
SRR24482139	Whole embryo	Whole embryo	2 hpf	not recorded	SRP436676	241.33
SRR24482158	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	186.80
SRR24482156	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	186.32
SRR24482157	Whole embryo	Whole embryo	48 hpf	not recorded	SRP436676	184.52
SRR24482159	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	175.28
SRR24482155	Whole embryo	Whole embryo	72 hpf	not recorded	SRP436676	166.42
SRR24482160	Whole embryo	Whole embryo	24 hpf	not recorded	SRP436676	147.13
SRR24482146	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	575.99
SRR24482147	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	574.96
SRR24482149	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	375.25
SRR24482150	Whole embryo · Triptolide 20 uM	Whole embryo	7 hpf	Triptolide 20 uM	SRP436676	366.69
SRR24482148	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	516.06
SRR24482154	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	501.79
SRR24482151	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	365.16
SRR24482152	Whole embryo · DMSO 0.5%	Whole embryo	7 hpf	DMSO 0.5%	SRP436676	364.65

Source: CnidoSite RNA-seq expression matrices (HSYMB_TPM, StringTie quantification over 44 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.