Variant report

Variant	rs2409072
Chromosome Location	chr5:57370628-57370629
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:57358822..57360505-chr5:57370261..57371953,2	MCF-7	breast:
2	chr5:57365927..57367766-chr5:57369159..57371917,3	MCF-7	breast:
3	chr5:57367772..57372114-chr5:57753566..57757294,7	MCF-7	breast:
4	chr5:57364074..57376813-chr5:57753679..57758569,26	MCF-7	breast:
5	chr5:57364843..57369662-chr5:57370174..57374836,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000238899	Chromatin interaction
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10461644	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10461645	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10491418	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10491419	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1125324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13152942	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13153091	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13155421	0.93[EUR][1000 genomes]
rs13159010	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13159117	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13160117	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13164786	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13168168	0.93[EUR][1000 genomes]
rs13170721	0.93[EUR][1000 genomes]
rs13176924	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13177963	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13178678	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13179148	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13181962	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13185082	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13185712	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13186152	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13186306	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13187466	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13190103	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1549244	0.81[EUR][1000 genomes]
rs1565335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17367557	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17367866	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17368537	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17368635	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17368691	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17368889	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17368931	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17368965	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17369063	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17369443	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17369506	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17369617	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17369645	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17370357	0.81[EUR][1000 genomes]
rs17433232	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17433281	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17433351	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17433413	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17433449	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17433525	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17433602	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17433644	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17434105	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17434147	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17434756	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17434985	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17435116	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17750857	0.93[EUR][1000 genomes]
rs17750946	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17750970	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17751024	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2130362	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2898084	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34028264	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34088369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34140627	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34145550	0.95[EUR][1000 genomes]
rs34183980	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34283705	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34357926	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34362402	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34393614	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34469485	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34486088	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34540977	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34558865	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34561456	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34563650	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34668052	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34728348	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34739332	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34839607	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34900511	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34911212	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35020899	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35102344	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35132533	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35288659	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35474010	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35480511	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35493107	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35559784	0.95[EUR][1000 genomes]
rs35585983	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35637947	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35699974	0.95[EUR][1000 genomes]
rs36003001	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs36056213	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs36108192	0.82[EUR][1000 genomes]
rs36118761	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4328995	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58405952	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71624184	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71624185	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7734877	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7735526	0.95[EUR][1000 genomes]

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57365400-57371200	Enhancers	A549	lung
2	chr5:57366000-57371200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:57367200-57372200	Enhancers	Fetal Heart	heart
4	chr5:57367800-57372600	Weak transcription	Left Ventricle	heart
5	chr5:57368600-57372000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr5:57368600-57372400	Weak transcription	Right Atrium	heart
7	chr5:57368600-57372800	Weak transcription	Fetal Muscle Leg	muscle
8	chr5:57368600-57372800	Weak transcription	Right Ventricle	heart
9	chr5:57368600-57373400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr5:57368600-57373600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr5:57368600-57373600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr5:57368600-57376200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr5:57368800-57371200	Weak transcription	Fetal Lung	lung
14	chr5:57368800-57373200	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr5:57368800-57373400	Weak transcription	Brain Germinal Matrix	brain
16	chr5:57369000-57373200	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr5:57369400-57372800	Weak transcription	Ovary	ovary
18	chr5:57369400-57374800	Weak transcription	Brain Hippocampus Middle	brain
19	chr5:57369400-57375200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr5:57369800-57370800	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr5:57369800-57371200	Enhancers	Rectal Mucosa Donor 31	rectum
22	chr5:57370400-57371400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr5:57370400-57373400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links