Variant report

Variant	rs7552422
Chromosome Location	chr1:85864214-85864215
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:85773623..85774572-chr1:85864125..85865314,5	MCF-7	breast:
2	chr1:85863358..85866240-chr1:85910699..85913658,2	K562	blood:
3	chr1:85809642..85811064-chr1:85864019..85865015,8	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CYR61-3	chr1:85864140-85865646	ENSG00000223653

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10489511	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10747319	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs10747320	1.00[AFR][1000 genomes]
rs11161608	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs2124138	1.00[AFR][1000 genomes]
rs233048	1.00[YRI][hapmap]
rs233052	1.00[AFR][1000 genomes]
rs233073	1.00[YRI][hapmap]
rs34102729	1.00[AFR][1000 genomes]
rs641864	1.00[YRI][hapmap]
rs684569	1.00[YRI][hapmap]
rs7526667	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7532994	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv830470	chr1:85820775-86014080	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1008877	chr1:85843238-85897570	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv3393958	chr1:85857980-85874598	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:85845000-85870000	Weak transcription	HSMMtube	muscle
2	chr1:85855200-85870000	Weak transcription	Fetal Stomach	stomach
3	chr1:85856000-85872800	Weak transcription	Fetal Intestine Small	intestine
4	chr1:85859400-85865000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr1:85861600-85865800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr1:85861800-85865800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr1:85862000-85864800	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr1:85862200-85874600	Weak transcription	Pancreas	Pancrea
9	chr1:85862600-85864400	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr1:85862600-85865000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:85862600-85869000	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr1:85862800-85865200	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr1:85862800-85865400	Enhancers	Fetal Lung	lung
14	chr1:85862800-85866200	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr1:85862800-85866200	Enhancers	NHLF	lung
16	chr1:85862800-85867000	Enhancers	Liver	Liver
17	chr1:85863000-85865800	Enhancers	Muscle Satellite Cultured Cells	--
18	chr1:85863200-85864400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr1:85863200-85865400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr1:85863400-85864400	Enhancers	NH-A	brain
21	chr1:85863400-85864600	Enhancers	Skeletal Muscle Female	skeletal muscle
22	chr1:85863400-85864800	Weak transcription	Rectal Smooth Muscle	rectum
23	chr1:85863400-85865000	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr1:85863400-85865400	Enhancers	HUVEC	blood vessel
25	chr1:85863400-85865400	Enhancers	NHDF-Ad	bronchial
26	chr1:85863400-85866400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr1:85863600-85864400	Enhancers	H9 Cell Line	embryonic stem cell
28	chr1:85863600-85865600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr1:85863600-85867000	Genic enhancers	Osteobl	bone
30	chr1:85863800-85864600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr1:85864000-85872600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr1:85864200-85864400	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr1:85864200-85864400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr1:85864200-85864400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr1:85864200-85864400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr1:85864200-85864400	Enhancers	Aorta	Aorta
37	chr1:85864200-85864400	Enhancers	Fetal Muscle Leg	muscle
38	chr1:85864200-85864400	Enhancers	Psoas Muscle	Psoas
39	chr1:85864200-85864400	Enhancers	Skeletal Muscle Male	skeletal muscle
40	chr1:85864200-85864600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr1:85864200-85864600	Enhancers	Ovary	ovary
42	chr1:85864200-85865400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr1:85864200-85865400	Genic enhancers	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links