Variant report

Variant	rs11624333
Chromosome Location	chr14:68979835-68979836
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:68974039..68976954-chr14:68979393..68981766,3	MCF-7	breast:
2	chr14:68979483..68980014-chr14:69036782..69037375,2	MCF-7	breast:
3	chr14:68772020..68773538-chr14:68978440..68980625,2	MCF-7	breast:
4	chr14:68713328..68715932-chr14:68978216..68981551,3	MCF-7	breast:
5	chr14:68978260..68979920-chr14:69142414..69145003,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10483812	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10483813	0.80[CEU][hapmap]
rs11621276	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11624097	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11624164	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11628293	0.90[CEU][hapmap];0.82[AMR][1000 genomes]
rs11844632	0.95[ASN][1000 genomes]
rs12889251	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17105780	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs17105847	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs17755734	1.00[MKK][hapmap]
rs17755752	1.00[MKK][hapmap]
rs17755925	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17756000	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17828907	1.00[ASW][hapmap];0.85[CEU][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17828955	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2158357	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34636650	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34882439	0.95[ASN][1000 genomes]
rs36028293	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71423314	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71423316	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71423317	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71423318	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs739874	0.90[CEU][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs999737	0.80[CEU][hapmap];0.93[MEX][hapmap];0.83[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869154	chr14:68366754-69041768	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv832822	chr14:68874640-69060272	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11624333	ZFP36L1	cis	cerebellum	SCAN

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:68967400-68981600	Enhancers	Fetal Muscle Leg	muscle
2	chr14:68967400-68982400	Enhancers	Primary B cells from peripheral blood	blood
3	chr14:68968000-68991200	Enhancers	Fetal Lung	lung
4	chr14:68971000-68983800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr14:68971800-68981400	Enhancers	Fetal Muscle Trunk	muscle
6	chr14:68972000-68980200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr14:68972600-68982000	Enhancers	Fetal Intestine Small	intestine
8	chr14:68973400-68981200	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr14:68973400-68985000	Weak transcription	Colonic Mucosa	Colon
10	chr14:68973800-68984600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr14:68974800-68984600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr14:68974800-68984800	Weak transcription	Brain Cingulate Gyrus	brain
13	chr14:68975200-68980000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr14:68975400-68981600	Enhancers	Fetal Stomach	stomach
15	chr14:68975600-68980200	Enhancers	Ovary	ovary
16	chr14:68975600-68980800	Enhancers	Esophagus	oesophagus
17	chr14:68975800-68980200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr14:68975800-68980200	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr14:68975800-68980200	Enhancers	NHLF	lung
20	chr14:68975800-68982400	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr14:68976000-68980200	Enhancers	NHDF-Ad	bronchial
22	chr14:68976000-68980400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr14:68976000-68981400	Enhancers	Colon Smooth Muscle	Colon
24	chr14:68976000-68981400	Enhancers	Rectal Smooth Muscle	rectum
25	chr14:68976200-68980200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr14:68976200-68980200	Enhancers	Duodenum Smooth Muscle	Duodenum
27	chr14:68976400-68985800	Weak transcription	Duodenum Mucosa	Duodenum
28	chr14:68976600-68980000	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr14:68976800-68980200	Enhancers	NHEK	skin
30	chr14:68976800-68982400	Enhancers	HMEC	breast
31	chr14:68976800-68983800	Weak transcription	Gastric	stomach
32	chr14:68977000-68982400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr14:68977400-68980200	Enhancers	Skeletal Muscle Female	skeletal muscle
34	chr14:68977400-68980600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr14:68977400-68984400	Weak transcription	HepG2	liver
36	chr14:68977600-68983600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr14:68977600-68985800	Weak transcription	Osteobl	bone
38	chr14:68977600-68988400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr14:68977800-68981400	Enhancers	Stomach Smooth Muscle	stomach
40	chr14:68977800-68984600	Weak transcription	Left Ventricle	heart
41	chr14:68978200-68981200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr14:68978200-68981400	Enhancers	Adipose Nuclei	Adipose
43	chr14:68978200-68983800	Weak transcription	Right Atrium	heart
44	chr14:68978400-68981400	Enhancers	Fetal Thymus	thymus
45	chr14:68978400-68982400	Enhancers	Primary B cells from cord blood	blood
46	chr14:68978600-68980000	Enhancers	Fetal Intestine Large	intestine
47	chr14:68978600-68980200	Enhancers	GM12878-XiMat	blood
48	chr14:68978600-68981400	Enhancers	Lung	lung
49	chr14:68978600-68982400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr14:68978600-68982400	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links