Variant report

Variant	rs57107124
Chromosome Location	chr5:90185769-90185770
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:90183752..90186174-chr5:90676365..90680151,3	MCF-7	breast:
2	chr5:90185745..90188136-chr5:90190208..90193028,2	K562	blood:
3	chr5:90184114..90185772-chr5:90277640..90279396,2	K562	blood:
4	chr5:90180905..90184179-chr5:90184592..90187757,3	K562	blood:
5	chr5:90184781..90186579-chr5:90679255..90681231,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000113369	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10044202	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10059629	0.87[ASN][1000 genomes]
rs10061193	0.94[ASN][1000 genomes]
rs10474336	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2366935	0.87[ASN][1000 genomes]
rs2438342	0.84[ASN][1000 genomes]
rs2438343	0.86[ASN][1000 genomes]
rs2438344	0.86[ASN][1000 genomes]
rs2438345	0.86[ASN][1000 genomes]
rs2443068	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28437109	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3098356	0.86[ASN][1000 genomes]
rs4916826	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4916827	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4916828	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4916829	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6878896	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv882367	chr5:89956991-90209824	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv1015449	chr5:89968626-90219398	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv517049	chr5:90003131-90262475	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
5	esv2754394	chr5:90181320-90225796	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90163600-90194400	Weak transcription	Pancreas	Pancrea
2	chr5:90165400-90188800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:90168200-90186000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr5:90179600-90190200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:90179800-90191600	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr5:90179800-90192000	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr5:90180600-90186600	Enhancers	Hela-S3	cervix
8	chr5:90180800-90190200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:90183200-90188600	Weak transcription	Esophagus	oesophagus
10	chr5:90183200-90192200	Weak transcription	Gastric	stomach
11	chr5:90183400-90186200	Enhancers	Liver	Liver
12	chr5:90184000-90186800	Enhancers	HepG2	liver
13	chr5:90184400-90186600	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr5:90184600-90186200	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr5:90184800-90186600	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr5:90184800-90186600	Enhancers	Fetal Intestine Large	intestine
17	chr5:90184800-90186600	Enhancers	Fetal Intestine Small	intestine
18	chr5:90185000-90186400	Enhancers	Duodenum Mucosa	Duodenum
19	chr5:90185000-90226600	Weak transcription	K562	blood
20	chr5:90185200-90186200	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr5:90185200-90186600	Enhancers	A549	lung
22	chr5:90185200-90191400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr5:90185400-90185800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr5:90185400-90191200	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr5:90185600-90186400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr5:90185600-90186600	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links