Variant report

Variant	rs1320973
Chromosome Location	chr1:169016679-169016680
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:169015675..169017491-chr1:169074337..169076638,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143153	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1200089	1.00[CHB][hapmap]
rs1200105	1.00[CHB][hapmap]
rs1200108	1.00[CHB][hapmap]
rs1575041	1.00[CHB][hapmap]
rs1575042	1.00[CHB][hapmap]
rs2982465	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3007370	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	esv3522071	chr1:168978325-169339044	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	esv3522072	chr1:168978325-169339044	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169011800-169017400	Weak transcription	Brain Substantia Nigra	brain
2	chr1:169011800-169017800	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr1:169011800-169028800	Weak transcription	Psoas Muscle	Psoas
4	chr1:169012000-169017400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr1:169012000-169018200	Weak transcription	Brain Angular Gyrus	brain
6	chr1:169012600-169017800	Enhancers	Duodenum Mucosa	Duodenum
7	chr1:169012800-169019400	Enhancers	GM12878-XiMat	blood
8	chr1:169013000-169018200	Enhancers	Stomach Mucosa	stomach
9	chr1:169013200-169018400	Enhancers	Rectal Mucosa Donor 29	rectum
10	chr1:169014800-169017400	Weak transcription	Brain Hippocampus Middle	brain
11	chr1:169015200-169017800	Enhancers	Fetal Intestine Small	intestine
12	chr1:169015200-169018200	Enhancers	Fetal Intestine Large	intestine
13	chr1:169015400-169017400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr1:169015400-169021200	Weak transcription	Small Intestine	intestine
15	chr1:169016000-169017000	Enhancers	Gastric	stomach
16	chr1:169016000-169017600	Enhancers	Sigmoid Colon	Sigmoid Colon
17	chr1:169016200-169017600	Enhancers	Colonic Mucosa	Colon
18	chr1:169016400-169017000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:169016400-169017000	Enhancers	Lung	lung
20	chr1:169016400-169017000	Enhancers	Pancreas	Pancrea
21	chr1:169016400-169018000	Enhancers	Rectal Mucosa Donor 31	rectum
22	chr1:169016400-169018200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr1:169016600-169018000	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr1:169016600-169018200	Enhancers	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links