Variant report

Variant	rs10058498
Chromosome Location	chr5:76135511-76135512
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr5:76131046-76138228	A549	lung:	n/a	n/a

Variant related genes	Relation type
RN7SL208P	TF binding region

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10059976	0.91[ASN][1000 genomes]
rs11952623	0.83[ASN][1000 genomes]
rs12187125	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13162638	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1529505	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2115499	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2242995	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2243003	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2243020	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2243022	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2243026	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2243029	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2243031	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2243051	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2243053	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2243057	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2243059	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4380630	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs444403	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4591731	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4703719	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4704365	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6453250	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6453251	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6453253	0.83[EUR][1000 genomes]
rs66946336	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6880329	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6887035	0.83[AMR][1000 genomes]
rs6894167	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6897362	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7703930	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7709688	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][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	nsv1019669	chr5:75836365-76477788	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv882210	chr5:76086597-76140337	Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	esv3393424	chr5:76122720-76287744	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv994503	chr5:76129230-76144182	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv2762526	chr5:76134777-76153934	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:76129800-76135800	Weak transcription	Pancreas	Pancrea
2	chr5:76130200-76135800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr5:76130200-76137200	Weak transcription	Esophagus	oesophagus
4	chr5:76130400-76135600	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr5:76130400-76140400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr5:76132200-76145800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr5:76132800-76136800	Enhancers	Fetal Intestine Large	intestine
8	chr5:76133600-76136800	Enhancers	Fetal Intestine Small	intestine
9	chr5:76134000-76136000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr5:76134000-76136000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr5:76134200-76135800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr5:76134200-76136000	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr5:76134200-76136000	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr5:76134200-76136200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr5:76134200-76136800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr5:76134600-76136400	Enhancers	Primary neutrophils fromperipheralblood	blood
17	chr5:76134800-76136000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr5:76134800-76136000	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr5:76135000-76136000	Weak transcription	Fetal Kidney	kidney
20	chr5:76135000-76136400	Weak transcription	HepG2	liver
21	chr5:76135000-76137200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr5:76135000-76138600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr5:76135000-76139800	Weak transcription	Small Intestine	intestine
24	chr5:76135200-76135600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr5:76135200-76136000	Enhancers	A549	lung
26	chr5:76135200-76136000	Enhancers	Hela-S3	cervix
27	chr5:76135200-76140200	Weak transcription	HUVEC	blood vessel
28	chr5:76135200-76140800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr5:76135400-76135800	Weak transcription	Duodenum Mucosa	Duodenum
30	chr5:76135400-76135800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr5:76135400-76136000	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr5:76135400-76145600	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links