Variant report

Variant	rs943345
Chromosome Location	chr10:97250630-97250631
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97237607..97239480-chr10:97249428..97252400,2	K562	blood:
2	chr10:97249137..97252026-chr10:97257407..97259761,2	K562	blood:
3	chr10:97249016..97250688-chr10:97324094..97327075,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SORBS1-1	chr10:97250494-97250877	NONHSAT015760

Extended variants
information (count: 7 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10509691	0.85[AFR][1000 genomes]
rs11188334	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17110913	0.84[MEX][hapmap]
rs1887228	0.82[JPT][hapmap]
rs4918943	0.84[MEX][hapmap]
rs7089353	0.84[MEX][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	nsv1045002	chr10:97214418-97250630	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs943345	PPP1R3C	cis	parietal	SCAN
rs943345	KRTAP19-8	trans	parietal	SCAN
rs943345	C10orf129	cis	parietal	SCAN
rs943345	PYROXD2	cis	parietal	SCAN
rs943345	DNTT	cis	cerebellum	SCAN

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97237200-97254000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:97239600-97260800	Weak transcription	Brain Germinal Matrix	brain
3	chr10:97240600-97253000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr10:97240800-97253400	Weak transcription	Duodenum Mucosa	Duodenum
5	chr10:97241000-97260600	Weak transcription	Fetal Muscle Trunk	muscle
6	chr10:97241400-97253600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr10:97241600-97254000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:97241600-97260400	Weak transcription	Fetal Brain Male	brain
9	chr10:97241600-97260600	Weak transcription	Fetal Stomach	stomach
10	chr10:97241800-97256400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr10:97242000-97253800	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr10:97242000-97256400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr10:97242600-97252200	Weak transcription	Pancreas	Pancrea
14	chr10:97242800-97256000	Weak transcription	Fetal Muscle Leg	muscle
15	chr10:97243000-97253400	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr10:97244200-97253200	Weak transcription	Lung	lung
17	chr10:97245200-97251000	Genic enhancers	Stomach Smooth Muscle	stomach
18	chr10:97245200-97252200	Weak transcription	Gastric	stomach
19	chr10:97245400-97252400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr10:97245400-97259200	Weak transcription	Brain Substantia Nigra	brain
21	chr10:97245400-97264600	Weak transcription	Ovary	ovary
22	chr10:97245800-97254000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr10:97245800-97259400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr10:97246200-97256600	Weak transcription	Brain Cingulate Gyrus	brain
25	chr10:97246400-97256000	Weak transcription	HSMMtube	muscle
26	chr10:97247000-97251000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr10:97247400-97250800	Weak transcription	Brain Angular Gyrus	brain
28	chr10:97247400-97259800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr10:97247600-97253400	Weak transcription	Placenta	Placenta
30	chr10:97248200-97251000	Enhancers	Psoas Muscle	Psoas
31	chr10:97249000-97253200	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr10:97249200-97250800	Genic enhancers	Colon Smooth Muscle	Colon
33	chr10:97249200-97251000	Genic enhancers	Brain Anterior Caudate	brain
34	chr10:97249200-97251600	Genic enhancers	HepG2	liver
35	chr10:97249400-97251400	Enhancers	Rectal Smooth Muscle	rectum
36	chr10:97249400-97261200	Weak transcription	Fetal Brain Female	brain
37	chr10:97249800-97250800	Strong transcription	Left Ventricle	heart
38	chr10:97249800-97250800	Weak transcription	Right Ventricle	heart
39	chr10:97249800-97252400	Weak transcription	Right Atrium	heart
40	chr10:97249800-97253200	Weak transcription	Fetal Intestine Large	intestine
41	chr10:97249800-97274000	Weak transcription	Spleen	Spleen
42	chr10:97250000-97258800	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr10:97250200-97250800	Enhancers	Fetal Intestine Small	intestine
44	chr10:97250400-97250800	Enhancers	Liver	Liver
45	chr10:97250400-97251000	Enhancers	Skeletal Muscle Female	skeletal muscle
46	chr10:97250400-97251200	Enhancers	Stomach Mucosa	stomach
47	chr10:97250600-97250800	Enhancers	Fetal Heart	heart
48	chr10:97250600-97250800	Enhancers	Fetal Lung	lung
49	chr10:97250600-97251200	Enhancers	H1 Cell Line	embryonic stem cell
50	chr10:97250600-97251200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links