Variant report

Variant	rs4958385
Chromosome Location	chr5:154073802-154073803
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:154070363..154074948-chr5:154077094..154079891,5	MCF-7	breast:
2	chr5:154061423..154063859-chr5:154072276..154076586,3	K562	blood:
3	chr5:154073729..154076379-chr5:154133995..154135635,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LARP1-1	chr5:154070884-154073825	NONHSAT104708

Variant related genes	Relation type
ENSG00000155506	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10039709	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs10043507	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10070709	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10070715	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10074675	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13186046	0.88[EUR][1000 genomes]
rs1862131	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1972618	0.82[EUR][1000 genomes]
rs2052448	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3893695	0.81[EUR][1000 genomes]
rs4958382	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs4958384	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4958387	0.81[EUR][1000 genomes]
rs4958759	0.81[EUR][1000 genomes]
rs4958760	0.86[CEU][hapmap];0.91[CHB][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4958761	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs4958762	0.85[CEU][hapmap];0.90[CHB][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6580100	0.82[ASN][1000 genomes]
rs6580101	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6580102	0.84[EUR][1000 genomes]
rs6580103	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6580104	0.83[EUR][1000 genomes]
rs6580107	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6580111	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs6868098	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs6897388	0.87[EUR][1000 genomes]
rs749777	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs7715775	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7721183	0.83[EUR][1000 genomes]
rs7723991	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7727616	0.84[ASN][1000 genomes]
rs7735337	0.86[EUR][1000 genomes]
rs7736062	0.81[EUR][1000 genomes]
rs9324791	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs9324792	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs965235	0.89[CEU][hapmap];0.81[EUR][1000 genomes]

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:154071200-154076200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr5:154071400-154077200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr5:154071400-154093400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr5:154071600-154076000	Weak transcription	Fetal Intestine Large	intestine
5	chr5:154071600-154076200	Weak transcription	Fetal Intestine Small	intestine
6	chr5:154071800-154076000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr5:154072200-154076000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr5:154072200-154076200	Weak transcription	K562	blood
9	chr5:154072200-154080600	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr5:154072200-154080600	Weak transcription	Stomach Mucosa	stomach
11	chr5:154072200-154081000	Weak transcription	Left Ventricle	heart
12	chr5:154072200-154082800	Weak transcription	Psoas Muscle	Psoas
13	chr5:154072200-154092600	Weak transcription	Adipose Nuclei	Adipose
14	chr5:154072400-154075600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr5:154072400-154075600	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr5:154072400-154075600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr5:154072400-154075800	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr5:154072400-154075800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr5:154072400-154076000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr5:154072400-154076000	Weak transcription	Fetal Heart	heart
21	chr5:154072400-154076800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr5:154072400-154076800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr5:154072400-154076800	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr5:154072400-154077400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr5:154072400-154078200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr5:154072400-154091800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr5:154072600-154075800	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr5:154072600-154076400	Weak transcription	Osteobl	bone
29	chr5:154072600-154076800	Weak transcription	NHDF-Ad	bronchial
30	chr5:154072800-154076800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr5:154072800-154077000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr5:154073000-154075600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr5:154073400-154074200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links