Variant report

Variant	rs7850723
Chromosome Location	chr9:115957369-115957370
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:115952878..115954594-chr9:115956098..115958292,2	K562	blood:
2	chr9:115956014..115959253-chr9:115961029..115963531,3	K562	blood:
3	chr9:115955703..115958661-chr9:115961003..115965387,3	MCF-7	breast:
4	chr9:115938881..115940407-chr9:115956072..115958715,2	MCF-7	breast:

Extended variants
information (count: 72 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10081639	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10081701	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10114293	0.93[AFR][1000 genomes]
rs10117100	0.91[AFR][1000 genomes]
rs10118429	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121981	0.90[ASN][1000 genomes]
rs10122151	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10123301	0.93[AFR][1000 genomes]
rs10817454	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981662	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10981679	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981686	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10981687	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1128786	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1133619	0.93[AFR][1000 genomes]
rs1133620	0.93[AFR][1000 genomes]
rs12236187	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12346816	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12684417	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16910202	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17762642	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28574672	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28790397	0.93[AFR][1000 genomes]
rs28790632	0.93[AFR][1000 genomes]
rs28830537	0.91[AFR][1000 genomes]
rs28891677	0.91[AFR][1000 genomes]
rs3810910	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3934969	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4378033	0.93[AFR][1000 genomes]
rs4407968	0.93[AFR][1000 genomes]
rs4490910	0.93[AFR][1000 genomes]
rs5015972	0.91[AFR][1000 genomes]
rs68122369	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7021999	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7029139	0.93[AFR][1000 genomes]
rs7029228	0.93[AFR][1000 genomes]
rs7029408	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7029472	0.93[AFR][1000 genomes]
rs7030027	0.93[AFR][1000 genomes]
rs7033282	0.93[AFR][1000 genomes]
rs7034425	0.93[AFR][1000 genomes]
rs7038133	0.93[AFR][1000 genomes]
rs7038260	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72758243	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73550301	0.93[AFR][1000 genomes]
rs73655844	0.93[AFR][1000 genomes]
rs73655845	0.92[AFR][1000 genomes]
rs7849150	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7850672	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7851935	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7852613	0.93[AFR][1000 genomes]
rs7854882	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7855105	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7856067	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7860472	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7863351	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7865125	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7865445	0.93[AFR][1000 genomes]
rs7865584	0.91[AFR][1000 genomes]
rs7865650	0.93[AFR][1000 genomes]
rs7866432	0.93[AFR][1000 genomes]
rs7874583	0.93[AFR][1000 genomes]
rs9695716	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9722731	0.89[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758198	chr9:115240454-116002951	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	esv2759710	chr9:115240454-116002951	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
4	nsv1035406	chr9:115883978-116003980	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv540201	chr9:115883978-116003980	Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv1042663	chr9:115920158-116167140	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
7	nsv893744	chr9:115934852-116170227	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
8	nsv893745	chr9:115955271-116005783	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7850723	SLC31A1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:115920000-115970200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr9:115920000-115973400	Strong transcription	Rectal Mucosa Donor 29	rectum
3	chr9:115920400-115973400	Strong transcription	Primary T helper cells fromperipheralblood	blood
4	chr9:115920800-115966400	Strong transcription	Dnd41	blood
5	chr9:115920800-115975000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr9:115923400-115976400	Strong transcription	Primary T cells fromperipheralblood	blood
7	chr9:115924000-115965800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:115924200-115969600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr9:115927600-115973400	Strong transcription	Skeletal Muscle Female	skeletal muscle
10	chr9:115936800-115982400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr9:115941200-115968600	Strong transcription	Primary B cells from peripheral blood	blood
12	chr9:115941200-115969200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr9:115945400-115977200	Weak transcription	Stomach Mucosa	stomach
14	chr9:115945600-115982800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:115946000-115963600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr9:115949800-115961800	Weak transcription	Small Intestine	intestine
17	chr9:115950400-115972800	Weak transcription	Right Ventricle	heart
18	chr9:115950600-115959400	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr9:115950600-115968600	Weak transcription	Fetal Heart	heart
20	chr9:115950600-115982400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr9:115950800-115961800	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr9:115950800-115963400	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr9:115950800-115963600	Weak transcription	Spleen	Spleen
24	chr9:115950800-115982800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr9:115951000-115957600	Weak transcription	NHLF	lung
26	chr9:115951000-115959000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr9:115951000-115959200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr9:115951000-115972200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr9:115951000-115972200	Weak transcription	Gastric	stomach
30	chr9:115951000-115972200	Weak transcription	Pancreas	Pancrea
31	chr9:115951000-115974000	Strong transcription	Placenta	Placenta
32	chr9:115951000-115982800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr9:115951200-115959000	Weak transcription	Fetal Kidney	kidney
34	chr9:115951200-115959200	Weak transcription	Colonic Mucosa	Colon
35	chr9:115951200-115964800	Weak transcription	Fetal Brain Male	brain
36	chr9:115951400-115959400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr9:115951400-115961800	Weak transcription	NHEK	skin
38	chr9:115951400-115967800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr9:115951600-115959000	Weak transcription	Psoas Muscle	Psoas
40	chr9:115952200-115959600	Strong transcription	Muscle Satellite Cultured Cells	--
41	chr9:115952200-115968000	Strong transcription	GM12878-XiMat	blood
42	chr9:115952200-115974400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr9:115952400-115962600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr9:115952400-115962600	Strong transcription	Fetal Thymus	thymus
45	chr9:115952400-115962600	Strong transcription	Left Ventricle	heart
46	chr9:115952400-115965800	Strong transcription	Primary T cells from cord blood	blood
47	chr9:115952400-115973400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
48	chr9:115952400-115973600	Strong transcription	Adipose Nuclei	Adipose
49	chr9:115952400-115974400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr9:115953000-115961200	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links