Gene detail

Detailed information of XP_032240044.2 in Nematostella vectensis

Genomic Location: NC_064045.1:10210876...10220074
NR annotation: XP_032240044.2, polycomb protein Suz12 isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC5514532

ATGATCACAGAAAAGACTGAACCCGTGGCTCATCCCACAAAGAAGCCAAAATTCGAACAAATTCGAGCCGATCATGAACTTTTTCTACAAGCATTCGAAAAGCCCACACAGATCTACCGATTCCTAGCTACAAGGAATGCAGTTGCGCCAATATTTCTACATCGGACACTGGCCTATATGAAACACCTTCGAACCCCTCGCAAAAAAAACAGGAAAGACTTCAAGCTTGACAGCATGCTGGAAAAACTGGAAAATAAAACTGATAGCAAACCAGACCCTAGTGAGGAGACTGATGGTTATCTTAATCTAACATTCTCAAGTTTCTTTTTCGGTTCTGGGCCAGTAAATGGTGATCTATCTGGAAACAAAAAGAGAAGGATGTTGGAACAGGACTTTGTGAAAGTGGAGGTTTCTCTTGTTAAGATCTGCCACAAGAAACGAAAGGACAGTGAACTCCAAGTTGATCAAGTCTCTCTTGGCGAAGGAGTGGTGCCATTCAACCCCCGCTCTCAGCTTCTTCAACTCTCTTCATCAAGCAGTGTGACTATCCCTAACACCACTTTTAAGGCCAGCAAGGCATATTCCAAGACGTGCCTTCTGACATTACAAGTTGCTGTACCATACAAAACACCAATCAAAGGAAACAAAGGGAGGCCACCCAAGAAAAAGGATTCAGACGAAGTGACAAAAAACTTCTCAGAAACTAATGGCACAGAGACACAAAGTCAAGAGAACATCGAACCACCAGCCAAACGACTCTGTTATGATGGAAATGAGAGTGAAGGGCAGGAACAGCAAGACTATCAAACAGAGCACACGACTTACTTTGCTGAACTTATCATGTTCGACAACCAGCGGCACTGTCTACTGACAGATGGCGAGTATGAGCTAGTGCTTCAAGAAAAGTACAAACGACCTGGAAGAAAGAGAGGTCTCCTGTCTAATAAGAGTTCCTGGGAAAATGTGTTCAACGGGAATATGGGGCCATTTGACATATTTGCGTATGGTCCTACTCTGAAATTCAAGCTATCTTGGTCTGGTACTCCTGTGGTCTCTCAACGACCAACTTCTCTTCCCCTTCACTCTTCTCACAACCTGCCTAGTGGTACAGAATCACCCCACACCCCCTCTGGAGACAGCTCACAGAAGGAAAAAACAAACAAGGCACAAGTCCTTTATTACCAGTTTATATATAACAGCCACACCCGGCAGCAGACAGAGGCCCGACACGACTTTTGCTGCCCCTGGTGCCATGTGAACTGCAGCAAGCTTTACAACTTGTTGAAACACCTCAAGTTGTGTCATAGCAGGTTCACATTCACTTACGCTCCTCACAGCAAAGGGGCCCGTATTGATGTGTGTGTTAACGAACACTATGATGGAAAGATGGAGGGTGTGAACGATGCCCTTGGCTACGCCTTCAGCCGGGAGGGACCATGTAGACGGGTGCCATTCAATCATGTCCTTGCATGGAGGCCGCAGAGAAGGAAAGAAAGCCTGTCAGAATTCCTTGAGCCTGATGATGCCGATGAAAACAGGCCCTATCATTCGGGATACACAAGGACGTATTTCCACTCATCTACATGCGTACCGATCAGCCAATCAGAGTTAGGCTCGTTGTCAGACAGCGAGGGGGAGGAGAATCCATTGTGGATGCGCATGCGCACTATCCAAATGATTGACGACTTCACTGACGTCAATGACGGCGAGAAGGAACTCATGAAGCTTTGGAACCTGCATCTAATGGAGAAAGGGTACGTCGCGGACGCTCAAGTGTACAGCGCCTGCCTCACCTTCATCGATGTGAACGCCAAGAAAATCATGAGCCAGAACCTCAAGCGCAACTTCCTTATTCACCTTGTCAGCCTTCACGACTTCAACCTGCTGAACGGAGGCCAGATATTCCAGCTCATGCAGAAGCTAAAAGACGTCGCGAACGAGACGAAACAAGAGCGAAACGCCGAAGTAGATGTTAGCGAGAATGCTGGCCAGAAAGGTGCGTGCGAAACGAAGGAATAA

Transcript

rna-XM_032384153.2

GATATCCCAGAAGTCCGCACGCGCTGTGTTCGCTTCCCGCGTAAGGGAAAGAAATTTGTGAATGGAGCCGAGTTGACATAGAAGTCCTCCTAGGAAACTCTATTTCTAGCATTTCCTAGACCCTTAGCCTGCTTAGAAGCACCAAGATGATCACAGAAAAGACTGAACCCGTGGCTCATCCCACAAAGAAGCCAAAATTCGAACAAATTCGAGCCGATCATGAACTTTTTCTACAAGCATTCGAAAAGCCCACACAGATCTACCGATTCCTAGCTACAAGGAATGCAGTTGCGCCAATATTTCTACATCGGACACTGGCCTATATGAAACACCTTCGAACCCCTCGCAAAAAAAACAGGAAAGACTTCAAGCTTGACAGCATGCTGGAAAAACTGGAAAATAAAACTGATAGCAAACCAGACCCTAGtgagGAGACTGATGGTTATCTTAATCTAACATTCTCAAGTTTCTTTTTCGGTTCTGGGCCAGTAAATGGTGATCTATCTGGAAACAAAAAGAGAAGGATGTTGGAACAGGACTTTGTGAAAGTGGAGGTTTCTCTTGTTAAGATCTGCCACAAGAAACGAAAGGACAGTGAACTCCAAGTTGATCAAGTCTCTCTTGGCGAAGGAGTGGTGCCATTCAACCCCCGCTCTCAGCTTCTTCAACTCTCTTCATCAAGCAGTGTGACTATCCCTAACACCACTTTTAAGGCCAGCAAGGCATATTCCAAGACGTGCCTTCTGACATTACAAGTTGCTGTACCATACAAAACACCAATCAAAGGAAACAAAGGGAGGCCACCCAAGAAAAAGGATTCAGACGAAGTGACAAAAAACTTCTCAGAAACTAATGGCACAGAGACACAAAGTCAAGAGAACATCGAACCACCAGCCAAACGACTCTGTTATGATGGAAATGAGAGTGAAGGGCAGGAACAGCAAGACTATCAAACAGAGCACACGACTTACTTTGCTGAACTTATCATGTTCGACAACCAGCGGCACTGTCTACTGACAGATGGCGAGTATGAGCTAGTGCTTCAAGAAAAGTACAAACGACCTGGAAGAAAGAGAGGTCTCCTGTCTAATAAGAGTTCCTGGGAAAATGTGTTCAACGGGAATATGGGGCCATTTGACATATTTGCGTATGGTCCTACTCTGAAATTCAAGCTATCTTGGTCTGGTACTCCTGTGGTCTCTCAACGACCAACTTCTCTTCCCCTTCACTCTTCTCACAACCTGCCTAGTGGTACAGAATCACCCCACACCCCCTCTGGAGACAGCTCACAGaaggaaaaaacaaacaaggcaCAAGTCCTTTATTACCAGTTTATATATAACAGCCACACCCGGCAGCAGACAGAGGCCCGACACGACTTTTGCTGCCCCTGGTGCCATGTGAACTGCAGCAAGCTTTACAACTTGTTGAAACACCTCAAGTTGTGTCATAGCAGGTTCACATTCACTTACGCTCCTCACAGCAAAGGGGCCCGTATTGATGTGTGTGTTAACGAACACTATGATGGAAAGATGGAGGGTGTGAACGATGCCCTTGGCTACGCCTTCAGCCGGGAGGGACCATGTAGACGGGTGCCATTCAATCATGTCCTTGCATGGAGGCCGCAGAGAAGGAAAGAAAGCCTGTCAGAATTCCTTGAGCCTGATGATGCCGATGAAAACAGGCCCTATCATTCGGGATACACAAGGACGTATTTCCACTCATCTACATGCGTACcgatcagccaatcagagttaGGCTCGTTGTCAGACAGCGAGGGGGAGGAGAATCCATTGTggatgcgcatgcgcactatCCAAATGATTGACGACTTCACTGACGTCAATGACGGCGAGAAGGAACTCATGAAGCTTTGGAACCTGCATCTAATGGAGAAAGGGTACGTCGCGGACGCTCAAGTGTACAGCGCCTGCCTCACCTTCATCGATGTGAACGCCAAGAAAATCATGAGCCAGAACCTCAAGCGCAACTTCCTTATTCACCTTGTCAGCCTTCACGACTTCAACCTGCTGAACGGAGGCCAGATATTCCAGCTCATGCAGAAGCTAAAAGACGTCGCGAACGAGACGAAACAAGAGCGAAACGCCGAAGTAGATGTTAGCGAGAATGCTGGCCAGAAAGGTGCGTGCGAAACGAAGGAATAAGATGGTATAGGAGAAAATGCCACCATGGTAGAGGAAAGCGTGGATCGGAAAGCTGGTCAGAATGTTGCGCTAGTTACGAAGGTGTATGATATGATAAAAGACCTCGAGAAAGGACCGTGTATCGAGCACTTACAGCCCGAAAAAAAACCGCGCCCGAACTTCTCAAGAACGTTAACTAGAATTTGAGAACTGGAAAGAGTTTGCGCAGTGAAGGAAACGTATACGTGGGTGCTGATCAGAAAGTTCAATGTACCTTAACCAAGTTTTATCACGACTTGTCTCTTGGAATAGACGTTTAAGAACCCTTGTCAGCCATACCTtcgttattgttttcaaaattggAAGACAAATTATCTGAAGAAATATCGAAATAACCACCAAAAAGTAACGTCTATGCCATACTTACTGATGGAAATGGACGCTTTCCTGCACTTGGTATTTGCTGGGAtgataaaatggcggctgacagggTTTTGACCGTAGAATGAT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q0VA03	Polycomb protein suz12 OS=Xenopus tropicalis OX=8364 GN=suz12 PE=2 SV=1
Q80U70	Polycomb protein Suz12 OS=Mus musculus OX=10090 GN=Suz12 PE=1 SV=2
Q15022	Polycomb protein SUZ12 OS=Homo sapiens OX=9606 GN=SUZ12 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006509 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09733 all species →	VEFS-Box	VEFS-Box of polycomb protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan
IPR019135 all species →	Domain	Polycomb protein, VEFS-Box	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22597 all species →	POLYCOMB GROUP PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0016586 all species →	Cellular Component	RSC-type complex	Interproscan
GO:0031490 all species →	Molecular Function	chromatin DNA binding	Interproscan
GO:0035098 all species →	Cellular Component	ESC/E(Z) 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
K11463	SUZ12; polycomb protein SUZ12	-	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_032240044.2 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

42TPM > 0

16Conditions

22.2Max TPM

12.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	14.51	18.20
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	9.39	13.87
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	6.93	8.14
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	13.42	15.90
whole 6 week old aboral regenerate · regenerate uncut	3	3	9.43	10.81
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	10.88	20.79
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	14.79	18.99
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	18.78	22.16
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	12.58	21.13
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	20.48	21.02
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	16.88	19.93
whole 6 week old aboral regenerate · regenerate 72hpa	3	2	8.93	13.55
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	13.77	14.45
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	11.96	18.45
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	11.15	13.36
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	5.28	15.85

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	18.20
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	14.66
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	10.67
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	13.87
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	7.17
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	7.13
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	8.14
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.55
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	6.10
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	15.90
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	13.59
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	10.77
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	10.81
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	10.34
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	7.15
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	20.79
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	11.85
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	18.99
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	14.52
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	10.86
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	22.16
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	18.76
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	15.42
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	21.13
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	16.62
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	21.02
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	20.46
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	19.97
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	19.93
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	16.72
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	13.99
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	13.55
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	13.24
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	14.45
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	13.72
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	13.15
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	18.45
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	17.43
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	13.36
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	12.38
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	7.70
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	15.85
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.