Gene detail

Detailed information of XP_032222152.2 in Nematostella vectensis

Genomic Location: NC_064035.1:9585085...9594912
NR annotation: XP_032222152.2, cytoplasmic dynein 1 intermediate chain 2 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032366261.2

GTGAGCTCTAGTAAGTTCCTCCCagtccgccatattggatctgtagaattttttatttactacCTAAACACAACATATTCTAGAAATCTAGTGCTGTGTTTAGCTACAAACATTATCAAAGATGTCTGACCGTAAGGCAGAAttagagagaaagagaaaaaagctGGAAGAGATTAGGCGGGCTAGGGAGGAAAAGAAACGGCAAGAACAGGACAGTGCTAAGACGGCTGCAAAAGCTGCGGCGGCTAGTTCTGCAAAAGTCGAATCTGATATCGATAGAAAGAAGCGCGAAGCTGATGAACTGCTCAAGGGTATACTACCAGACGATGTCATAGATGGAACTGGGGTTTCAGTGCCACACCCACTGCCTATAAAAACGGCATCTGTACAAGACCAGGCACAAGTCCAGTCAGCACCAGCAGCTGTTATtCCAAAAAAAGCCCCAAAACTTGTTATGTCGCAGACTGCTCAAACTAACATACCACCTAAGtTGCCAGTGCTGTACAGTAAGGAAACACAAACACCAGTAGTTGATAAGGATGAAAAAGAGGAGGAGGAAGTTAAACCCAAGCCGATACAGCAAGAGTCCCAGCCAGAAACAGAAGAGAAAACAGAGCAACATAAGGAAGAGGAAGTTGTGATAGAGTTAAGTGAGGAACAGAAAGACCAAATTCTTGGTTCGCAAGAGTTTAGTAGGTTCTTTGACAAGGCTGTGAGGCTGGTTGAGCGAGCACTCACAGAGGATCTGGACATTACCATTGATTACTCTGGTGCCGAGGGGGATGACCTTGAAGGGGGCTCTCAAGCTGCAAGAGAACTTACTCTTAGCAGAGATTTCTATGATGAAAGATGGTCTCGCCACCGTACAGTCACATGCCTCGACTGGTCCAACCAGTACCCTGAACTACTTGTTGCTTCATACAATAATAACGAAGACGCCCCCCATGAACCTGATGGGGTGGCTCTCATCTGGAACCTTAAGTTTGCCAAGACCACACCTGAGTACATTTTCCATTGCCAGTCAGCTGTGATGTCCGCCACATTTGCCAAGTTTCACCCAAATCTGATCATTGGTGGTACATACTCTGGTCAGATAGTACTGTGGGATAATAGGAGCAGTAAGAGGACACCTGTTCAGAGGACGCCGCTATCGGCCACGGCACACACACATCCAGTGTACTGCGTTAATGTGGTGGGTACACAGAACGCTCACAACTTGATCAGTGTGTCAACGGACGGCAAGATGTGCTCCTGGAGTCTTGACATGCTGTCCCAGCCGCAAGATAGCATGGAGCTCCAGTACAAGCAGTCAAAGTCTGTAGCTGTCACATGTATGTCCTTTCTTGCTGGAGATGTGAACAATTTTGTGGTCGGCAGTGAGGAGGGTACTGTCTACACAGCCTGTCGCCATGGCAGCAAGGCTGGCATCAGTGACGTATTTGAGGGCCATTACGGCCCTGTGACAGGGATTGATACTCATTCTGCATCGGGGCCTATTGACTTCTCCCATCTGTTCCTGACATCCTCGTTTGATTGGACACTTAAGCTCTGGAGCCACAAGAGTCCCCGCCCTTACTACTCCTTTGAAGACAATGGTGATTACATTTATGATGTGAAGTGGTCGCCCATCCACCCTGCCCTCTTTGCGACTGTTGATGGCACTGGGAGACTGGATCTATGGAACCTTAATAGTGACACTGAGGTCCCTATCGCCAGCACTGCTACAGAGTCTCTGACAGCTTTGAACAATGTCCAATGGACGCAATCTGGACAGCAGATCTCAGTCGGAGATGATGATGGCAGGGTTTATATCTATGATGTAGGCGAGCAACTAGCGACGCCCCGCAATGACGAATGGAGCAGGCTTCAGCGGACCTTGCAAGATATTCAGGCTAATGCCGCTGGCTCTGTTAGTGAGACTGTGGGCTCGCCACGCATGTCGCCATCCAAAATCCCCTTTACATGAAAACCAAAGAGTTAAGTATAGAAGTCAAATAGAAAAAGGAGATCCTTTTAAAAGCATCTATCCAGTACTATATGTAGTCCTATATATATCTAGTACTATACTTATCTATTGCAATTTTCCTTGTGATTGCTTGTTATGATAAGCTATATGTTGTAATGGATATTTGCAGTATTTGATGGTACATGCGTCTCTGGAATAGCTAAAAGAACTTAttgtgggatacctgtgttagTACAGTTTTATAGGGGGACTAAGTCGAAAGGCAGACCAATAATAGGCCATAAGGCTTTCTACCACAGCTAGCCTGCTTGAGATATCTGTGTATACTTTACAATGAGTTTTATAGAGTTAAATGTGTCATATGGCCCCTATGCTGTCTCCAGGGAGTGGAGCAATGCATGTTATTCCTGTGATTCCTTTATCATAACCCTGGGGACCAGGGGCTCGTTCTTACCCTGGTCACACCCTCTTTGCGTGCTTATAATGATCTTGGGTCCCGTGCAAAAGGGAACTTAGTGATATATGGGGTCAATAAAATTATGTAGGATATTACAGTTgtaattaaatatttattaccTGTGCTGAAATActaaataaaactaaattacacaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O88485	Cytoplasmic dynein 1 intermediate chain 1 OS=Mus musculus OX=10090 GN=Dync1i1 PE=1 SV=2
Q29RQ3	Cytoplasmic dynein 1 intermediate chain 1 OS=Bos taurus OX=9913 GN=DYNC1I1 PE=1 SV=1
O14576	Cytoplasmic dynein 1 intermediate chain 1 OS=Homo sapiens OX=9606 GN=DYNC1I1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006423 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11540 all species →	Dynein_IC2	Cytoplasmic dynein 1 intermediate chain 2	Family	Interproscan
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR025956 all species →	Family	Cytoplasmic dynein 1 intermediate chain 1/2	Interproscan
IPR050687 all species →	Family	Dynein Intermediate Chain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12442 all species →	DYNEIN INTERMEDIATE CHAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005868 all species →	Cellular Component	cytoplasmic dynein complex	Interproscan
GO:0007018 all species →	Biological Process	microtubule-based movement	Interproscan
GO:0010970 all species →	Biological Process	transport along microtubule	Interproscan
GO:0045503 all species →	Molecular Function	dynein light chain binding	Interproscan
GO:0045504 all species →	Molecular Function	dynein heavy chain 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K10415	DYNC1I, DNCI; dynein cytoplasmic 1 intermediate chain	-	Cytoskeleton proteins	ko04812	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_032222152.2 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

46TPM > 0

16Conditions

36.3Max TPM

23.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	28.81	31.70
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	22.82	29.03
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	15.39	15.86
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	23.29	26.71
whole 6 week old aboral regenerate · regenerate uncut	3	3	19.03	21.65
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	18.44	33.72
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	27.22	29.02
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	22.65	24.73
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	22.96	26.76
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	20.05	21.71
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	19.49	21.43
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	28.37	31.03
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	27.14	28.94
whole 6 week old aboral regenerate · regenerate 48hpa	3	3	26.54	28.91
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	25.07	28.86
whole 6 week old aboral regenerate · regenerate 12hpa	3	2	20.09	36.31

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	31.70
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	28.85
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	25.88
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	29.03
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	21.67
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	17.77
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	15.86
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	15.77
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	14.53
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	26.71
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	23.87
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	19.31
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	21.65
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	18.42
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	17.01
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	33.72
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	21.61
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	29.02
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	28.93
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	23.72
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	24.73
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	23.26
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	19.96
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	26.76
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	23.31
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	18.82
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	21.71
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	21.22
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	17.21
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	21.43
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	18.72
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	18.32
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	31.03
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	30.16
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	23.92
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	28.94
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	27.71
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	24.78
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	28.91
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	28.52
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	22.18
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	28.86
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	25.00
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	21.34
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	36.31
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	23.95
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.