Variant report

Variant	rs13112253
Chromosome Location	chr4:100643484-100643485
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:100507860..100509548-chr4:100642042..100643826,2	MCF-7	breast:
2	chr4:100483021..100485005-chr4:100643048..100646277,3	MCF-7	breast:
3	chr4:100484779..100487158-chr4:100642620..100644520,2	MCF-7	breast:
4	chr4:100482136..100482964-chr4:100643476..100644143,2	MCF-7	breast:
5	chr4:100633517..100636102-chr4:100642778..100645814,3	K562	blood:

Variant related genes	Relation type
ENSG00000145331	Chromatin interaction
ENSG00000138823	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10018176	0.82[YRI][hapmap]
rs1027223	0.90[ASN][1000 genomes]
rs10516445	0.86[CEU][hapmap]
rs10516455	0.90[ASN][1000 genomes]
rs1115721	0.90[ASN][1000 genomes]
rs11722443	0.96[ASN][1000 genomes]
rs11730739	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11936303	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12640222	0.91[ASN][1000 genomes]
rs12641768	0.82[CEU][hapmap]
rs12642668	0.87[ASN][1000 genomes]
rs12643245	0.96[ASN][1000 genomes]
rs12648843	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13111133	0.88[ASN][1000 genomes]
rs13111603	0.88[ASN][1000 genomes]
rs13118288	0.88[ASN][1000 genomes]
rs13123629	0.88[ASN][1000 genomes]
rs13123690	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13124255	0.89[CHB][hapmap];0.88[ASN][1000 genomes]
rs13130068	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13130949	0.86[CEU][hapmap]
rs13150247	0.96[ASN][1000 genomes]
rs1352775	0.86[CEU][hapmap];0.97[CHD][hapmap];0.89[TSI][hapmap];0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1388295	0.90[ASN][1000 genomes]
rs1426734	0.88[ASN][1000 genomes]
rs1582793	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1586756	0.90[ASN][1000 genomes]
rs1586757	0.91[ASN][1000 genomes]
rs17029387	0.96[ASN][1000 genomes]
rs1816197	0.95[ASN][1000 genomes]
rs1834659	0.88[ASN][1000 genomes]
rs1948353	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2866167	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35215295	0.90[ASN][1000 genomes]
rs36098323	0.91[ASN][1000 genomes]
rs61705069	0.94[ASN][1000 genomes]
rs6831328	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6832692	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6840719	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs71614607	0.90[ASN][1000 genomes]
rs7659550	0.82[CEU][hapmap]
rs7670607	0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7677594	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7678889	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7688255	0.88[ASN][1000 genomes]
rs7691498	0.89[ASN][1000 genomes]
rs881981	0.81[CEU][hapmap]
rs959247	0.82[CEU][hapmap]
rs991811	0.86[CEU][hapmap]

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100636600-100646600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:100638200-100643800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr4:100638600-100644200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr4:100638600-100644200	Weak transcription	Psoas Muscle	Psoas
5	chr4:100641200-100645400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr4:100641200-100646000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr4:100641600-100643600	Weak transcription	Adipose Nuclei	Adipose
8	chr4:100641600-100644000	Weak transcription	Colon Smooth Muscle	Colon
9	chr4:100641600-100644000	Weak transcription	HSMMtube	muscle
10	chr4:100642200-100646000	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr4:100642200-100646400	Enhancers	Fetal Lung	lung
12	chr4:100642400-100644800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr4:100642600-100645600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr4:100642800-100644800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr4:100642800-100644800	Enhancers	Hela-S3	cervix
16	chr4:100642800-100645600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr4:100642800-100647200	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr4:100643000-100644800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr4:100643000-100645200	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr4:100643000-100645600	Enhancers	NHEK	skin
21	chr4:100643000-100645800	Enhancers	HMEC	breast
22	chr4:100643000-100646000	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr4:100643000-100646000	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr4:100643200-100644800	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr4:100643200-100645200	Enhancers	Ovary	ovary
26	chr4:100643200-100645200	Enhancers	Right Atrium	heart
27	chr4:100643200-100645400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr4:100643200-100645600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr4:100643400-100643600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr4:100643400-100643600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr4:100643400-100643600	Enhancers	Left Ventricle	heart
32	chr4:100643400-100643600	Enhancers	Stomach Smooth Muscle	stomach
33	chr4:100643400-100643800	Enhancers	H1 Cell Line	embryonic stem cell
34	chr4:100643400-100643800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr4:100643400-100644400	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr4:100643400-100644400	Weak transcription	Fetal Brain Male	brain
37	chr4:100643400-100645000	Enhancers	HUES48 Cell Line	embryonic stem cell
38	chr4:100643400-100645000	Enhancers	A549	lung
39	chr4:100643400-100645200	Enhancers	Pancreas	Pancrea
40	chr4:100643400-100645400	Enhancers	Fetal Heart	heart
41	chr4:100643400-100645600	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr4:100643400-100645600	Enhancers	Fetal Intestine Large	intestine
43	chr4:100643400-100645600	Enhancers	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links