Variant report

Variant	rs515246
Chromosome Location	chr6:11603037-11603038
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr6:11602341-11603090	MCF-7	breast:	n/a	chr6:11602372-11602382
2	POLR2A	chr6:11602977-11603055	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11598388..11600876-chr6:11602880..11604674,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000271897	TF binding region

Extended variants
information (count: 5 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs489516	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs520927	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs528679	0.94[ASN][1000 genomes]
rs604711	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs605058	0.94[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs515246	MUTED	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11593200-11605400	Weak transcription	Right Atrium	heart
2	chr6:11593600-11604600	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr6:11593800-11609800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:11597400-11606600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:11599200-11603400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:11599800-11604400	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr6:11599800-11604400	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr6:11599800-11606600	Weak transcription	Fetal Intestine Large	intestine
9	chr6:11600000-11604400	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr6:11600000-11605400	Weak transcription	Placenta	Placenta
11	chr6:11600000-11605400	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr6:11600800-11606400	Weak transcription	Aorta	Aorta
13	chr6:11601000-11605400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:11601200-11605400	Weak transcription	Fetal Muscle Leg	muscle
15	chr6:11601400-11603200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr6:11601600-11605600	Weak transcription	Ovary	ovary
17	chr6:11602200-11603200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:11602200-11603400	Enhancers	A549	lung
19	chr6:11602400-11604800	Strong transcription	HSMM	muscle
20	chr6:11602400-11605000	Strong transcription	HSMMtube	muscle
21	chr6:11602800-11603800	Weak transcription	HUVEC	blood vessel
22	chr6:11602800-11604400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr6:11602800-11605400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr6:11602800-11605600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr6:11602800-11609200	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr6:11602800-11609800	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr6:11603000-11603200	Enhancers	Fetal Intestine Small	intestine
28	chr6:11603000-11605200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:11603000-11605400	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr6:11603000-11606600	Weak transcription	Esophagus	oesophagus
31	chr6:11603000-11606600	Weak transcription	Spleen	Spleen
32	chr6:11603000-11609200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr6:11603000-11609400	Weak transcription	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links