Gene detail

Detailed information of XP_032232692.2 in Nematostella vectensis

Genomic Location: NC_064046.1:13389324...13393730
NR annotation: XP_032232692.2, DNA replication factor Cdt1 isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC116615287

ATGGACCAACCGACTTTGACCGAGTTTTTTAGTACAAGAAAGCGGCCGATAGAAGGTGTGCACCCTGCTAAAAGAAGAAAGCTTATCGAAACTGAATCAGTGGTTTCCGAAACCCCGAAATCTGTGAGAGGAAGACAACAACGTGCAAAAACCACAACGACGACAACAAAGCCGAAGCAACGAACAACCCGAACTAGAAATGCTAAAGCTAAGGCAACGAAGGCACCCGGCAATGAGATTCACAGAGTTTTCTTGAGGTCTGTGATGCAGAAAGTGGTCGAGGAGTCTTCGAACTCAGTCAGCGAAGTCACTTCTGTCTCTGATGAGCACGATGTTATCGAAGCGACGCCATCTTTGAATGGAGTGTCTGAAAGAAAGCGCAAGACTCGACCTGAAAACGCTGCTGTGGCGGAGAAAAAGCCAGGAAGTACAATAGAGAAGGATGGAAATAGTGCCCATGATGTCAGAGACGAAATTGCTCAACCTAAAATGGAAGGAAGTATTAAAGAAAAGGCAAATAATACAAAAGGTAACCGAATGACGAAAACTTCGGGAACTCGAAAACAAAAAGAAGCGCCTGGTTCCGAAGCTGAGCCGAGCCAAAAGGAGTCTACACCTATGCCAAGCGATGACACTATTGAGTCAAATCAGCATGAAATAACCAAGTCCCCCCTGAAACATGAGACAGTAAAGAGAAATTCAGGAGGTCTTAAAATCAACCCATGGATCGCTGAGCAAGCTAACAAAGTACTATTGAGTCGCGGAGAAGCGGCCTTGCTACTCAGTCAGCAAAAGCAAGCCAATGCCGTGAAATCTAAAGGCAAGCAATGGTCTAAGGGTAAGGGTGTGGTCCCTGGGGTGCTGTCGGAGGGGAAAGCGAAGGAGGGGCTTGAGAGAGCCCGGCAGCTAATCAAGAACATGAGATCATTGGAATCAAAAGCAGCTGAAGCTAAGGCCTCAACAGAAACGGAGAAACCGGAACGTCTACACGAGGCAGCCAAATGCCCAACATCAACAAAGTCTAAAGAAGGCTCAAAGAAAAGCAGTCCAAAGAAAGCACCAGCGCATGAGAGATTTCACACCATTGCTCAACCAACACCACCCCTGTCGGGTACCTCAGTTGCAGCCTTACCTCTCCCCTACAAGTACAAAGTCTTAGCAGAAATCTTCAACTGTTGCGACACAGTGGTTAACCTTCTTGGACAAAGGAATGAGGCATGCACTTTTGAGAAGCTGACTGATTCTGTCCAGAAAATGTGTAGGAAGAGGTTTGAAAGAAGACACCTTGCACAGATTGTGAATCTTATGCCCTCAGCATTCCATGTACAACAAGTCCGTAACAGCAGCAAGTCGATCTCATACAACCTGACCATTCAGTTTGGTCCAGCAGAGAACTCCAGTACTAACCGGCTGACAGTGACCATGTCTGAGCTTCTTTCCAGGAAGAAAATTATGCAGAATGCATTGTTAAAAGTCACCAAGGAACACCACCAGACATTTCTTCAGAATTTAGAAGAACCCATTTCTGTTGATAGTGATAAGATTATCAGATGGCATCCTCAATTCAAGCTAGATGAGGTCCCAGATCTTGAACAGGGTGCCCTACCAGAGGCACCTGTTGTCAAGACTTTCACCTCTGCCAAAGATGTGCTTGATCGAGGAAGGGGAAACATCCCACCTAGGGTTGAAAAAGCACTCAGCAGTGTCGCCAAAAAGACAGAGGACACTCCCTCCCTCAAACTGACATTCAGCCGCACACCTGTGGACAGCCCCCCTAAGACACCTGAGAAGGCATCTAGTGGTGCTTTGAAAGGCGTCTCTCTTGATCTGCTCAATAAGATTCGTAAGAAAGAAGCAAAAAAGTTGGAAGAAGACCTAACCAGAGATCCTGGCCTTGATAAAAAAATGACCATGCGGGAACGCCTCCCAGAACTGTGCCGTATTCTGAAAACCTATTTCACTACTGAACGAAAAGCAGCAATTCCACTAGAAGATGCTGTTCTAAAGCTTTCTGAGAGTTACTCAACATCTCTCTCATCAACTCAAGTTGATCAGCACCTTAAGCTACTATCTACGCTAGTTCCAGAATGGCTTGCAATTGTGACTGTGAGAAAGTGTCCATATCTCAAGATAAACAAGAAAGCTGACATAAACAGTGTTATAAACAAAGTTGTTACCATGGAGCTTAAATGA

Transcript

rna-XM_032376801.2

GGTATGTCCGCGCCAAAATTTCTCTTGAAGCTCTCGAAGCAATCATCTGTTCGGTGCAAGAAACAACTTATGCAATGGACCAACCGACTTTGACCGAGTTTTTTAGTACAAGAAAGCGGCCGATAGAAGGTGTGCACCCTGCTAAAAGAAGAAAGCTTATCGAAACTGAATCAGTGGTTTCCGAAACCCCGAAATCTGTGAGAGGAAGACAACAACGTGCAAAAACCACAACGACGACAACAAAGCCGAAGCAACGAACAACCCGAACTAGAAATGCTAAAGCTAAGGCAACGAAGGCACCCGGCAATGAGATTCACAGAGTTTTCTTGAGGTCTGTGATGCAGAAAGTGGTCGAGGAGTCTTCGAACTCAGTCAGCGAAGTCACTTCTGTCTCTGATGAGCACGATGTTATCGAAGCGACGCCATCTTTGAATGGAGTGTCTGAAAGAAAGCGCAAGACTCGACCTGAAAACGCTGCTGTGGCGGAGAAAAAGCCAGGAAGTACAATAGAGAAGGATGGAAATAGTGCCCATGATGTCAGAGACGAAATTGCTCAACCTAAAATGGAAGGAAGTATTAAAGAAAAGGCAAATAATACAAAAGGTAACCGAATGACGAAAACTTCGGGaactcgaaaacaaaaagaagcgCCTGGTTCCGAAGCTGAGCCGAGCCAAAAGGAGTCTACACCTATGCCAAGCGATGACACTATTGAGTCAAATCAGCATGAAATAACCAAGTCCCCCCTGAAACATGAGACAGTAAAGAGAAATTCAGGAGGTCTTAAAATCAACCCATGGATCGCTGAGCAAGCTAACAAAGTACTATTGAGTCGCGGAGAAGCGGCCTTGCTACTCAGTCAGCAAAAGCAAGCCAATGCCGTGAAATCTAAAGGCAAGCAATGGTCTAAGGGTAAGGGTGTGGTCCCTGGGGTGCTGTCGGAGGGGAAAGCGAAGGAGGGGCTTGAGAGAGCCCGGCAGCTAATCAAGAACATGAGATCATTGGAATCAAAAGCAGCTGAAGCTAAGGCCTCAACAGAAACGGAGAAACCGGAACGTCTACACGAGGCAGCCAAATGCCCAACATCAACAAAGTCTAAAGAAGGCTCAAAGAAAAGCAGTCCAAAGAAAGCACCAGCGCATGAGAGATTTCACACCATTGCTCAACCAACACCACCCCTGTCGGGTACCTCAGTTGCAGCCTTACCTCTCCCCTACAAGTACAAAGTCTTAGCAGAAATCTTCAACTGTTGCGACACAGTGGTTAACCTTCTTGGACAAAGGAATGAGGCATGCACTTTTGAGAAGCTGACTGATTCTGTCCAGAAAATGTGTAGGAAGAGGTTTGAAAGAAGACACCTTGCACAGATTGTGAATCTTATGCCCTCAGCATTCCATGTACAACAAGTCCGTAACAGCAGCAAGTCGATCTCATACAACCTGACCATTCAGTTTGGTCCAGCAGAGAACTCCAGTACTAACCGGCTGACAGTGACCATGTCTGAGCTTCTTTCCAGGAAGAAAATTATGCAGAATGCATTGTTAAAAGTCACCAAGGAACACCACCAGACATTTCTTCAGAATTTAGAAGAACCCATTTCTGTTGATAGTGATAAGATTATCAGATGGCATCCTCAATTCAAGCTAGATGAGGTCCCAGATCTTGAACAGGGTGCCCTACCAGAGGCACCTGTTGTCAAGACTTTCACCTCTGCCAAAGATGTGCTTGATCGAGGAAGGGGAAACATCCCACCTAGGGTTGAAAAAGCACTCAGCAGTGTCGCCAAAAAGACAGAGGACACTCCCTCCCTCAAACTGACATTCAGCCGCACACCTGTGGACAGCCCCCCTAAGACACCTGAGAAGGCATCTAGTGGTGCTTTGAAAGGCGTCTCTCTTGATCTGCTCAATAAGATTCGTAAGAAAGAAGCAAAAAAGTTGGAAGAAGACCTAACCAGAGATCCTGgccttgataaaaaaatgaccatGCGGGAACGCCTCCCAGAACTGTGCCGTATTCTGAAAACCTATTTCACTACTGAACGAAAAGCAGCAATTCCACTAGAAGATGCTGTTCTAAAGCTTTCTGAGAGTTACTCAACATCTCTCTCATCAACTCAAGTTGATCAGCACCTTAAGCTACTATCTACGCTAGTTCCAGAATGGCTTGCAATTGTGACTGTGAGAAAGTGTCCATATCTCAAGATAAACAAGAAAGCTGACATAAACAGTGTTATAAACAAAGTTGTTACCATGGAGCTTAAATGATTGTCTTTTCCTAATAACCTGGTGTTCTTGTACATTAGTACAATTTAATTAAATCATATATTATCACTGGACACAGGAGGCCATATAACACTAGCAAATACCATTATCTCACATCTTCTATTGCAACTTTCTACATCAAAGAAACAATTTATTTTAGCTAAGATTTTTAAcattagatttttttaatgtgaatACTTTTTTCATGTACATTATACATAGAAGTTACATTGTCAATTGTTAGTTATAATTTCTGTTCTAAAATTGTAATTTACAGCTTAACTTTTGCAGTTATACTGTAAATCCTTTGGAATTACCATCAATAAAAACAGATGGCTTGCTTGGTTTCCATGCCACACAAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9I9A7	DNA replication factor Cdt1 OS=Xenopus laevis OX=8355 GN=cdt1 PE=1 SV=2
Q9H211	DNA replication factor Cdt1 OS=Homo sapiens OX=9606 GN=CDT1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008039 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16679 all species →	CDT1_C	DNA replication factor Cdt1 C-terminal domain	Domain	Interproscan
PF08839 all species →	CDT1	DNA replication factor CDT1 like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR045173 all species →	Family	DNA replication factor Cdt1	Interproscan
IPR014939 all species →	Domain	CDT1 Geminin-binding domain-like	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan
IPR032054 all species →	Domain	DNA replication factor Cdt1, C-terminal	Interproscan
IPR038090 all species →	Homologous_superfamily	DNA replication factor Cdt1, C-terminal WH domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR28637 all species →	DNA REPLICATION FACTOR CDT1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000076 all species →	Biological Process	DNA replication checkpoint signaling	Interproscan
GO:0000278 all species →	Biological Process	mitotic cell cycle	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0030174 all species →	Biological Process	regulation of DNA-templated DNA replication initiation	Interproscan
GO:0070182 all species →	Molecular Function	DNA polymerase binding	Interproscan
GO:0071163 all species →	Biological Process	DNA replication preinitiation complex 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
K10727	CDT1; chromatin licensing and DNA replication factor 1	-	Chromosome and associated proteins	ko03036	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_032232692.2 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

41TPM > 0

16Conditions

29.2Max TPM

12.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	16.60	19.51
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	10.05	13.68
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	10.25	10.98
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	13.91	15.02
whole 6 week old aboral regenerate · regenerate uncut	3	3	9.86	11.36
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	8.81	13.77
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	9.29	16.59
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	15.27	17.05
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	13.86	17.10
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	9.69	15.81
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	13.04	13.80
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	17.14	23.39
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	19.51	29.22
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	11.32	17.81
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	9.96	15.09
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	4.39	13.16

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	19.51
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	15.29
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	15.00
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	13.68
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	8.37
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	8.09
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	10.98
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	10.70
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	9.07
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	15.02
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	14.73
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	11.97
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	11.36
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	9.49
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	8.74
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	13.77
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	12.65
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	16.59
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	11.28
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	17.05
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	15.03
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	13.72
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	17.10
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	12.89
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	11.59
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	15.81
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	13.26
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	13.80
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	13.35
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	11.96
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	23.39
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	14.36
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	13.67
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	29.22
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	15.55
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	13.75
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	17.81
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	16.15
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	15.09
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	14.78
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	13.16
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.