Gene detail

Detailed information of XP_001635530.3 in Nematostella vectensis

Genomic Location: NC_064042.1:8208680...8217984
NR annotation: XP_001635530.3, intraflagellar transport protein 57 homolog [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_001635480.3

GCGAGGCAGATTCCCTCGAAACGAAAAAACATGGCAACTGGAAAGCAAATGATGAACACAATATTTCGTTGAATTTTCACCGTTTATATCGCTTTTTGGCCTAAAAACTCCGGCAAATTATCCTAAAAAGGGTTGTGTATTAAAGATGGAGGGTGACGGGCGTAGAGGAGGCGAAGAATCATTGAGTTACATGTCAACTGTTGGCACCATGGAAGACTTGTTAGAGAAGCTAAAGCTTCTCGAGTACGATGCAGAATTCTGCAAACCTCTCGGCTTCAGACCACTTACAAGGCACTACTTTGCCCTATCTACCAACCCAGGTGAACAGTTCTTTACATTCACATCGCTTGCTGCATGGTTACTCAACCAGCGTGGCAAGAATTTTGAACAACCTCAGGagTATGATGACCCCAATGCCACCATCTCAAATATTCTTGATGAGTTAAAAAAGATGGGTATTCAAACAGACTTTCCACCTGCTAAACTTAAGACGGGGTCAGGAGAACAGGTCTGTTATTGTATTGACAAACTTTGTGATGAAGCCCTTAAAGCAAAGAGGTTTGGATGGAAAAGACCTGTACACCCAGAGGAGGAGTTCGAAGAGGAGACAATGGAAGATGATGAATCAGAGGTCACCATTAATAAAGTCGAAGAGGAACTAGAGGTTGATGATCAAGCTGAAATTGAAGAAGATGATAGCTACCTTGACCTAACTGGACTGAAGGAGCAGAACAACTTCAGAGATTCATCAGAGTCACACAAGCCTGACTCAGTGATGGAGTCAAATGTTGACGCTGCCGAATGGAAGCTGGAGGTTGAGAGAGTTCTTCCCTTACTCAAAGTTCACATACGTACAGATAACAAGGACTGGAGAACCCACTATGAACAAATGCAGCAGCACAGTGAAGGAATTAAGtcatctttaaatgaaactaggGGCCATCTTGACAAGCTACATCAAGAGATCAGTCGTACTTTGGAAAAGATAGCAAGTCGGGAGAAATATGTAAACAACCAGCTTGAGCACCTACTGCTAGAGTACCGTGGATTGCAAGACAGTGCAGCAGAGATTAAGGAACGATACAAGCAAGGCAGTGGAGGAGTGACAGAACTCACCAGGTCCTTGGCACAGATAACCGAGGAACTTGAATCAGTCAAGGCGCAGATGGATGAGCGAGGAACCAACATGACTGACGCTGGACCGCTGGTCAGAATTAAGCAGTCTCTGACGCGGCTCAAGCAGGAGGTACAACAGATGGAGGTCAGGATCGGAGTGGTAGAACACTCTCTACTCAGCGCAAAGCTCAGAGACCGCAGTGCATTAAGGGAAGACATGCAAGCTCCCGCTGCAGATAACTTCGGCCAGTTCAAAATATGAACTTGTAGGCAGGCCTCAAATTGGAGACCTCTCTGTAAATAAAGGTTATATAGCAAGAGTTCTTATTGTAGATTAAAAAGGATGTAAAATATGCAAAGCGGACGATGACCCTCTGGCTGCACTCACCAGCATCGTCCAACCTTGGTCTCCCGCCCACCTGGGCCAGCTCTAGTCATTCGGATTCAGAGCAAGCGGGAAATCaaaaagtgacgtcattgaatAGGAGGCCGCGTAGCCTCGAGATGTCTTTGAACGAGGCTTATCCAACCTTACACTGACTGTCTCGGGTCGATCACAAGATAAAAGACGTTAGCAAAGCTCCTCGCAGTACCCCAAAATGGTGACATGTGCAACCAGCAAGGCAATTCCTTTGTCTTGTCATTAACCAAGTGAGGATGGGCCAGCATTACAGGGACATTTCGGTGCTGCTCTCCTCATGCACCCGAGGTTTTTGTATGCCTCAGTCATACTTTTACATCACTTCCCGCACAAACAGCACGACTTTTCTCAGCCAAGCAGTATGTCATAAACTGTCAATCAGTGGTGTAATATATGTACTTGGGCTGTACGCAGGTTACAGGAAACTCAACAGCGCCAAGGGTGTCACGGCAGTCAGAGGCGAGGTGGGTGGAGTGGGGAAAGAAAGAATGAGAAAAGACGttttctctctctttcttgCCCGTTATTTCCTGTTGCGCCTTGTCCGCGACGCCGTGGTACCCTAAGACCGGACTTTTCATCCCTTTTGCTTGCGCTTGTCGGTagaaatattatttgttttaataTAGTTGGTCTGCTATTTTGGCGCGAAATTACGAGCTTTATTATACAAATCGGCTCTACTCCTTTCGGGCCTACTTCATAGCAGCCAAGTCGAACGTTAGAGCCTTTAAAGGAGCTGTATTATATTTGAAACGATGTTGGAACCTTGCAAAGTTTGTAAATAAAGCCCTGAATTCAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8BXG3	Intraflagellar transport protein 57 homolog OS=Mus musculus OX=10090 GN=Ift57 PE=1 SV=1
Q5EA95	Intraflagellar transport protein 57 homolog OS=Bos taurus OX=9913 GN=IFT57 PE=1 SV=1
A9ULY7	Intraflagellar transport protein 57 homolog OS=Xenopus laevis OX=8355 GN=ift57 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005268 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10498 all species →	IFT57	Intra-flagellar transport protein 57	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019530 all species →	Family	Intra-flagellar transport protein 57	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16011 all species →	IFT57/HIPPI	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0005813 all species →	Cellular Component	centrosome	Interproscan
GO:0005929 all species →	Cellular Component	cilium	Interproscan
GO:0030992 all species →	Cellular Component	intraciliary transport particle B	Interproscan
GO:0042073 all species →	Biological Process	intraciliary transport	Interproscan
GO:1905515 all species →	Biological Process	non-motile cilium assembly	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
K04638	IFT57, HIPPI, ESRRBL1; intraflagellar transport protein 57	-	Cilium and associated proteins	ko03037	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_001635530.3 across 48 RNA-seq samples of Nematostella vectensis. 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

37TPM > 0

16Conditions

14.7Max TPM

6.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	7.11	7.75
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	6.68	8.73
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	4.90	5.60
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	12.86	14.70
whole 6 week old aboral regenerate · regenerate uncut	3	3	8.82	13.14
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	4.38	13.13
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	5.59	8.58
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	7.55	8.45
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	6.86	12.24
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	6.96	12.96
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	7.01	9.02
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	5.26	8.12
whole 6 week old aboral regenerate · regenerate 60hpa	3	2	5.58	9.42
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	5.78	9.11
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	5.27	8.61
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	3.01	9.04

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	7.75
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	7.14
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	6.45
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	8.73
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	6.07
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	5.25
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	5.60
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.63
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	4.46
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	14.70
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	14.36
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	9.53
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	13.14
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	7.67
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	5.64
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	13.13
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	8.58
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	8.18
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	8.45
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	8.05
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	6.16
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	12.24
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	8.34
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	12.96
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	7.93
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	9.02
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	6.56
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	5.45
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	8.12
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	7.65
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	0.00
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	9.42
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	7.32
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	0.00
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	9.11
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	8.22
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	8.61
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	7.21
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	9.04
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

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.