Variant report

Variant	rs11188305
Chromosome Location	chr10:97143266-97143267
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1001875	0.83[CHB][hapmap]
rs11188290	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3896409	0.88[CHB][hapmap]
rs6583997	0.88[CHB][hapmap]
rs6583998	0.88[CHB][hapmap]
rs7074224	0.88[CHB][hapmap]
rs7080545	0.94[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs943544	0.88[CHB][hapmap]
rs955759	0.82[CHB][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11188305	TCTN3	cis	parietal	SCAN
rs11188305	TLL2	cis	cerebellum	SCAN

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97107200-97151800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:97109000-97148000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr10:97121000-97148000	Weak transcription	Esophagus	oesophagus
4	chr10:97122000-97149400	Weak transcription	Spleen	Spleen
5	chr10:97130200-97156600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr10:97135600-97155600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr10:97135800-97145000	Strong transcription	Fetal Brain Female	brain
8	chr10:97136200-97145400	Strong transcription	Placenta	Placenta
9	chr10:97137200-97147400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr10:97137200-97148000	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr10:97137600-97145000	Strong transcription	Fetal Muscle Leg	muscle
12	chr10:97137800-97144000	Strong transcription	Psoas Muscle	Psoas
13	chr10:97137800-97144200	Strong transcription	HUES48 Cell Line	embryonic stem cell
14	chr10:97137800-97146200	Weak transcription	Small Intestine	intestine
15	chr10:97137800-97147400	Strong transcription	HepG2	liver
16	chr10:97137800-97156000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr10:97138000-97145000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr10:97138200-97143600	Weak transcription	GM12878-XiMat	blood
19	chr10:97138200-97147200	Strong transcription	Skeletal Muscle Male	skeletal muscle
20	chr10:97138400-97143600	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr10:97138400-97145000	Weak transcription	Stomach Mucosa	stomach
22	chr10:97138400-97145800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr10:97138400-97147000	Strong transcription	Skeletal Muscle Female	skeletal muscle
24	chr10:97138400-97147400	Weak transcription	Right Atrium	heart
25	chr10:97138600-97144600	Strong transcription	Fetal Stomach	stomach
26	chr10:97138600-97145400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr10:97139200-97144000	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr10:97139200-97144400	Strong transcription	Fetal Intestine Large	intestine
29	chr10:97139200-97145600	Strong transcription	Liver	Liver
30	chr10:97139400-97143600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
31	chr10:97139400-97145000	Strong transcription	Brain Cingulate Gyrus	brain
32	chr10:97139400-97145400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr10:97139600-97144000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr10:97139600-97145000	Strong transcription	Cortex derived primary cultured neurospheres	brain
35	chr10:97139800-97144000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
36	chr10:97139800-97144400	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr10:97140000-97148200	Weak transcription	Fetal Heart	heart
38	chr10:97140400-97143800	Strong transcription	Colon Smooth Muscle	Colon
39	chr10:97140600-97144200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr10:97140600-97158600	Weak transcription	HSMM	muscle
41	chr10:97140800-97147000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr10:97140800-97147200	Weak transcription	Brain Angular Gyrus	brain
43	chr10:97140800-97148000	Weak transcription	Duodenum Mucosa	Duodenum
44	chr10:97140800-97152400	Weak transcription	Colonic Mucosa	Colon
45	chr10:97141000-97144600	Strong transcription	Duodenum Smooth Muscle	Duodenum
46	chr10:97141000-97147800	Weak transcription	Fetal Brain Male	brain
47	chr10:97141400-97143600	Strong transcription	Fetal Lung	lung
48	chr10:97141400-97144400	Strong transcription	Ovary	ovary
49	chr10:97141600-97144600	Strong transcription	Fetal Intestine Small	intestine
50	chr10:97141600-97144600	Genic enhancers	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links