Variant report

Variant	rs9429875
Chromosome Location	chr1:211783609-211783610
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:211781693..211784457-chr1:211822859..211825401,2	K562	blood:
2	chr1:211749761..211758387-chr1:211774495..211787871,24	K562	blood:
3	chr1:211782443..211790536-chr1:211800686..211806134,8	K562	blood:
4	chr1:211749584..211755940-chr1:211774898..211785859,28	K562	blood:
5	chr1:211777656..211789537-chr1:211792028..211798981,15	K562	blood:
6	chr1:211757578..211759628-chr1:211782776..211785565,2	K562	blood:

Variant related genes	Relation type
ENSG00000170385	Chromatin interaction
ENSG00000261314	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1867376	1.00[CHB][hapmap];0.95[LWK][hapmap];0.96[MKK][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes]
rs34550869	0.85[AFR][1000 genomes]
rs55657443	0.97[EUR][1000 genomes]
rs6684175	1.00[CHB][hapmap];0.93[LWK][hapmap];0.91[MKK][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs66905067	0.91[EUR][1000 genomes]
rs676520	1.00[CHB][hapmap]
rs726986	1.00[CHB][hapmap]
rs72745270	0.86[EUR][1000 genomes]
rs7527059	0.81[CEU][hapmap];0.88[TSI][hapmap]
rs7536267	1.00[CHB][hapmap]
rs7550089	1.00[CHB][hapmap]
rs7553055	0.87[EUR][1000 genomes]
rs894856	1.00[CHB][hapmap]
rs9430073	1.00[CHB][hapmap]
rs9430074	1.00[CHB][hapmap];0.93[LWK][hapmap];0.91[MKK][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs9430075	1.00[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832514	chr1:211630247-211794963	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9429875	DTL	cis	parietal	SCAN

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211771600-211786200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr1:211777000-211786600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr1:211777200-211786200	Weak transcription	NHLF	lung
4	chr1:211777400-211784200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr1:211777400-211784200	Weak transcription	NHDF-Ad	bronchial
6	chr1:211779200-211784600	Weak transcription	Right Atrium	heart
7	chr1:211779600-211784600	Weak transcription	Lung	lung
8	chr1:211780000-211784200	Weak transcription	Brain Anterior Caudate	brain
9	chr1:211780000-211784200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr1:211780000-211784800	Weak transcription	Esophagus	oesophagus
11	chr1:211780400-211783800	Enhancers	Spleen	Spleen
12	chr1:211780600-211784000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr1:211780800-211786400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr1:211781000-211784200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr1:211781000-211784200	Weak transcription	Brain Hippocampus Middle	brain
16	chr1:211781000-211784200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr1:211781000-211784600	Weak transcription	Rectal Smooth Muscle	rectum
18	chr1:211781000-211785400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr1:211781000-211786400	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr1:211781200-211785000	Enhancers	Liver	Liver
21	chr1:211781200-211785200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr1:211781200-211786200	Enhancers	K562	blood
23	chr1:211781400-211786400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr1:211781600-211784000	Weak transcription	Adipose Nuclei	Adipose
25	chr1:211781600-211787000	Weak transcription	Primary hematopoietic stem cells	blood
26	chr1:211781800-211784200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr1:211781800-211784800	Weak transcription	Placenta	Placenta
28	chr1:211781800-211786400	Weak transcription	Stomach Mucosa	stomach
29	chr1:211781800-211792000	Weak transcription	Primary B cells from cord blood	blood
30	chr1:211782000-211784600	Weak transcription	Pancreas	Pancrea
31	chr1:211782000-211784800	Weak transcription	Colonic Mucosa	Colon
32	chr1:211782000-211785200	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr1:211782000-211786600	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr1:211782000-211786600	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr1:211782200-211787400	Weak transcription	Small Intestine	intestine
36	chr1:211782600-211786200	Weak transcription	Fetal Intestine Large	intestine
37	chr1:211782600-211786200	Enhancers	Hela-S3	cervix
38	chr1:211782600-211786200	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr1:211782800-211784000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr1:211782800-211784000	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr1:211782800-211784200	Weak transcription	NH-A	brain
42	chr1:211782800-211785400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr1:211782800-211785400	Flanking Active TSS	HepG2	liver
44	chr1:211782800-211785600	Enhancers	Fetal Muscle Trunk	muscle
45	chr1:211782800-211787400	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr1:211783000-211784200	Weak transcription	NHEK	skin
47	chr1:211783000-211784200	Weak transcription	Osteobl	bone
48	chr1:211783000-211784400	Weak transcription	Brain Substantia Nigra	brain
49	chr1:211783000-211786200	Weak transcription	Fetal Intestine Small	intestine
50	chr1:211783000-211786400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links