Variant report

Variant	rs6580102
Chromosome Location	chr5:154069269-154069270
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:154062816..154065132-chr5:154065984..154069776,3	MCF-7	breast:
2	chr5:154069246..154072134-chr5:154161988..154164384,2	K562	blood:
3	chr5:154064183..154068335-chr5:154068405..154072941,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000221552	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10039709	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10051493	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10058604	0.80[ASN][1000 genomes]
rs10070709	0.82[EUR][1000 genomes]
rs10073561	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10074675	0.84[EUR][1000 genomes]
rs1862130	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1972618	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2052448	0.85[EUR][1000 genomes]
rs3893695	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4117784	0.83[ASN][1000 genomes]
rs4958382	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4958384	0.85[EUR][1000 genomes]
rs4958385	0.84[EUR][1000 genomes]
rs4958387	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4958759	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4958761	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4958765	0.88[ASN][1000 genomes]
rs6580101	0.83[EUR][1000 genomes]
rs6580103	0.85[EUR][1000 genomes]
rs6580104	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6580107	0.85[EUR][1000 genomes]
rs6580108	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6580109	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6580110	0.86[EUR][1000 genomes]
rs6580111	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6868098	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs749777	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7710331	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7715775	0.85[EUR][1000 genomes]
rs7721183	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7736062	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9324791	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9324792	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs965235	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:154060800-154070000	Weak transcription	Gastric	stomach
2	chr5:154063000-154069600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr5:154063600-154069800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr5:154063800-154071200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr5:154064400-154071000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr5:154064400-154071000	Weak transcription	Psoas Muscle	Psoas
7	chr5:154064600-154070800	Weak transcription	Right Atrium	heart
8	chr5:154064600-154070800	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr5:154065200-154070800	Weak transcription	Pancreas	Pancrea
10	chr5:154065200-154070800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr5:154066000-154069400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr5:154066000-154070200	Weak transcription	Left Ventricle	heart
13	chr5:154066400-154071800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr5:154066600-154069600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr5:154066600-154070600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr5:154066600-154070800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr5:154066600-154070800	Weak transcription	Rectal Smooth Muscle	rectum
18	chr5:154066600-154071000	Weak transcription	Colonic Mucosa	Colon
19	chr5:154066600-154071000	Weak transcription	NHLF	lung
20	chr5:154066800-154069600	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr5:154066800-154070800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr5:154067000-154070800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr5:154067800-154069400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links