Variant report

Variant	rs17140261
Chromosome Location	chr5:115985179-115985180
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10519479	0.81[GIH][hapmap]
rs10519481	0.81[GIH][hapmap]
rs17140271	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28441147	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs58479811	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61501878	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73259298	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73259299	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73261463	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2763490	chr5:115918339-116138525	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv830456	chr5:115969066-116170718	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:115965000-115987200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr5:115976400-115987000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr5:115981800-115986200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr5:115981800-115987000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:115981800-115987200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr5:115982000-115985600	Weak transcription	Brain Anterior Caudate	brain
7	chr5:115982400-115986000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr5:115982400-115987200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr5:115982600-115986400	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr5:115983400-115985600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr5:115983800-115987200	Weak transcription	HepG2	liver
12	chr5:115984000-115986800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr5:115984000-115986800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr5:115984000-115987000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr5:115984000-115987200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr5:115984600-115985600	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr5:115984800-115986800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr5:115985000-115985200	Enhancers	Fetal Brain Female	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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