Variant report

Variant	rs12416299
Chromosome Location	chr10:97301831-97301832
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97299536..97302399-chr10:97304637..97306757,4	K562	blood:
2	chr10:97301380..97303820-chr10:97311084..97312595,2	MCF-7	breast:
3	chr10:97284547..97287564-chr10:97299273..97302569,3	K562	blood:
4	chr10:97298258..97302790-chr10:97302901..97306757,8	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10786218	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10882614	0.85[EUR][1000 genomes]
rs10882615	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs10882616	0.85[EUR][1000 genomes]
rs10882617	0.80[CEU][hapmap];0.85[EUR][1000 genomes]
rs10882618	0.83[CEU][hapmap];0.85[EUR][1000 genomes]
rs11188353	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188355	0.84[EUR][1000 genomes]
rs11188357	0.85[EUR][1000 genomes]
rs11188359	0.85[EUR][1000 genomes]
rs12219483	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs12411861	0.82[CEU][hapmap];0.86[EUR][1000 genomes]
rs12414046	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1536444	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17458865	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs17537576	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs55873943	0.81[EUR][1000 genomes]
rs56353860	0.85[EUR][1000 genomes]
rs61870046	0.85[EUR][1000 genomes]
rs61870048	0.84[EUR][1000 genomes]
rs61870049	0.85[EUR][1000 genomes]
rs61870050	0.83[EUR][1000 genomes]
rs61870051	0.85[EUR][1000 genomes]
rs61870052	0.85[EUR][1000 genomes]
rs7085647	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	esv1808679	chr10:97266478-97316855	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97282200-97304400	Weak transcription	Brain Germinal Matrix	brain
2	chr10:97289200-97309000	Enhancers	Left Ventricle	heart
3	chr10:97289400-97303800	Weak transcription	HSMM	muscle
4	chr10:97291800-97308600	Enhancers	Colon Smooth Muscle	Colon
5	chr10:97293200-97302800	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr10:97293400-97305400	Enhancers	Right Atrium	heart
7	chr10:97293400-97306000	Enhancers	Fetal Intestine Large	intestine
8	chr10:97293600-97302000	Weak transcription	Adipose Nuclei	Adipose
9	chr10:97295000-97305200	Enhancers	Stomach Mucosa	stomach
10	chr10:97296200-97306400	Enhancers	Liver	Liver
11	chr10:97296400-97302400	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr10:97296400-97311400	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr10:97296600-97302800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr10:97296800-97312600	Weak transcription	Placenta	Placenta
15	chr10:97297000-97302600	Weak transcription	HSMMtube	muscle
16	chr10:97297200-97302800	Weak transcription	Fetal Brain Male	brain
17	chr10:97298200-97302000	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr10:97298200-97305000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr10:97298200-97308200	Enhancers	Fetal Muscle Leg	muscle
20	chr10:97298400-97305200	Enhancers	Duodenum Smooth Muscle	Duodenum
21	chr10:97298600-97305000	Enhancers	Brain Anterior Caudate	brain
22	chr10:97298800-97305800	Enhancers	Brain Hippocampus Middle	brain
23	chr10:97299000-97303800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr10:97299000-97307200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
25	chr10:97299200-97303000	Enhancers	Brain Inferior Temporal Lobe	brain
26	chr10:97299200-97303600	Enhancers	Brain Substantia Nigra	brain
27	chr10:97299200-97303600	Enhancers	K562	blood
28	chr10:97299400-97304200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr10:97299400-97305200	Enhancers	Right Ventricle	heart
30	chr10:97299800-97302200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr10:97299800-97302800	Enhancers	Small Intestine	intestine
32	chr10:97300200-97303400	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr10:97300400-97305000	Enhancers	Spleen	Spleen
34	chr10:97300400-97308800	Enhancers	Psoas Muscle	Psoas
35	chr10:97300600-97302800	Enhancers	Fetal Stomach	stomach
36	chr10:97300600-97304200	Enhancers	Gastric	stomach
37	chr10:97300600-97305200	Enhancers	Lung	lung
38	chr10:97300800-97302200	Genic enhancers	Fetal Intestine Small	intestine
39	chr10:97300800-97303000	Flanking Active TSS	Stomach Smooth Muscle	stomach
40	chr10:97300800-97303800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr10:97300800-97305200	Enhancers	Pancreas	Pancrea
42	chr10:97300800-97307200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
43	chr10:97301000-97303200	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr10:97301000-97303600	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr10:97301000-97303800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr10:97301000-97303800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr10:97301000-97315200	Enhancers	HepG2	liver
48	chr10:97301200-97302400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr10:97301200-97302800	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr10:97301200-97303000	Enhancers	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links