Variant report

Variant	rs17414989
Chromosome Location	chr1:161706149-161706150
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:161704696..161707209-chr1:161718366..161721899,3	MCF-7	breast:
2	chr1:161703503..161707776-chr1:161717836..161724077,7	K562	blood:
3	chr1:161702286..161705058-chr1:161705873..161710501,6	K562	blood:

Variant related genes	Relation type
ENSG00000081721	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10917740	1.00[GIH][hapmap]
rs12021510	0.90[EUR][1000 genomes]
rs12040409	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs12046383	0.82[CEU][hapmap];0.97[EUR][1000 genomes]
rs16859391	1.00[GIH][hapmap]
rs16859935	0.85[TSI][hapmap]
rs17406901	0.87[EUR][1000 genomes]
rs17415303	0.87[EUR][1000 genomes]
rs17415408	0.87[EUR][1000 genomes]
rs17415505	0.87[EUR][1000 genomes]
rs4301614	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs55871495	0.87[EUR][1000 genomes]
rs56077197	0.87[EUR][1000 genomes]
rs56124956	0.87[EUR][1000 genomes]
rs61801189	0.97[EUR][1000 genomes]
rs61801191	0.97[EUR][1000 genomes]
rs61801234	0.87[EUR][1000 genomes]
rs61801235	0.87[EUR][1000 genomes]
rs61801236	0.84[EUR][1000 genomes]
rs61801237	0.87[EUR][1000 genomes]
rs61801238	0.87[EUR][1000 genomes]
rs61801239	0.87[EUR][1000 genomes]
rs61801242	0.87[EUR][1000 genomes]
rs61801244	0.87[EUR][1000 genomes]
rs61801245	0.87[EUR][1000 genomes]
rs72706008	0.97[EUR][1000 genomes]
rs72706014	0.87[EUR][1000 genomes]
rs72706022	0.80[EUR][1000 genomes]
rs72706023	0.87[EUR][1000 genomes]
rs72706028	0.87[EUR][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	nsv428257	chr1:161406315-161868263	Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	esv33393	chr1:161478681-162080327	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	nsv464184	chr1:161646807-161885352	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv548075	chr1:161646807-161885352	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17414989	FCRLB	cis	lymphoblastoid	seeQTL

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:161697800-161706600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr1:161698000-161707600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:161699200-161707400	Enhancers	HMEC	breast
4	chr1:161700200-161707800	Weak transcription	Primary B cells from peripheral blood	blood
5	chr1:161700200-161708400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr1:161700600-161706200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr1:161704000-161706200	Weak transcription	HSMM	muscle
8	chr1:161704000-161706400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr1:161704000-161706400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr1:161704000-161706400	Weak transcription	NHLF	lung
11	chr1:161704000-161708600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr1:161704000-161713800	Weak transcription	HUVEC	blood vessel
13	chr1:161704200-161709000	Weak transcription	Placenta	Placenta
14	chr1:161704400-161706200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:161704600-161706200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr1:161704600-161706200	Weak transcription	NHDF-Ad	bronchial
17	chr1:161705000-161707200	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr1:161705400-161706400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:161705400-161706800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr1:161705400-161708000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr1:161705400-161708600	Enhancers	H1 Cell Line	embryonic stem cell
22	chr1:161705600-161706200	Enhancers	A549	lung
23	chr1:161705600-161706400	Enhancers	Esophagus	oesophagus
24	chr1:161705600-161706800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr1:161705600-161706800	Flanking Active TSS	GM12878-XiMat	blood
26	chr1:161705600-161707000	Enhancers	iPS-20b Cell Line	embryonic stem cell
27	chr1:161705600-161707200	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr1:161705600-161707400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr1:161705800-161707200	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr1:161705800-161708000	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr1:161706000-161706200	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr1:161706000-161706200	Enhancers	Muscle Satellite Cultured Cells	--
33	chr1:161706000-161706400	Bivalent Enhancer	Stomach Mucosa	stomach
34	chr1:161706000-161706600	Enhancers	H9 Cell Line	embryonic stem cell
35	chr1:161706000-161706600	Enhancers	Hela-S3	cervix
36	chr1:161706000-161706600	Enhancers	K562	blood
37	chr1:161706000-161706600	Flanking Active TSS	NHEK	skin
38	chr1:161706000-161706800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr1:161706000-161706800	Enhancers	NH-A	brain
40	chr1:161706000-161707000	Enhancers	Osteobl	bone
41	chr1:161706000-161707200	Enhancers	HUES48 Cell Line	embryonic stem cell
42	chr1:161706000-161707400	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links