Variant report

Variant	rs229662
Chromosome Location	chr14:65173839-65173840
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:64972763..64974388-chr14:65172588..65174166,2	MCF-7	breast:
2	chr14:65168373..65176902-chr14:65220182..65231670,21	MCF-7	breast:
3	chr14:65168529..65178400-chr14:65179583..65195815,52	MCF-7	breast:
4	chr14:65171254..65174488-chr14:65196605..65199995,3	MCF-7	breast:
5	chr14:64969978..64971737-chr14:65172793..65174564,2	MCF-7	breast:
6	chr14:65170433..65175465-chr14:65207632..65214317,8	MCF-7	breast:
7	chr14:65168335..65178043-chr14:65220677..65234710,31	MCF-7	breast:

Variant related genes	Relation type
ENSG00000070182	Chromatin interaction
ENSG00000089775	Chromatin interaction
ENSG00000126804	Chromatin interaction
ENSG00000126822	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs17179970	0.95[ASN][1000 genomes]
rs17179984	0.95[ASN][1000 genomes]
rs17180090	0.91[ASN][1000 genomes]
rs17767188	0.91[ASN][1000 genomes]
rs17767206	0.91[ASN][1000 genomes]
rs1985465	0.83[ASN][1000 genomes]
rs1985466	0.87[ASN][1000 genomes]
rs1998120	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs229603	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs229620	0.87[ASN][1000 genomes]
rs229624	0.95[ASN][1000 genomes]
rs229625	0.87[ASN][1000 genomes]
rs229626	0.87[ASN][1000 genomes]
rs229644	0.87[ASN][1000 genomes]
rs229646	0.80[ASN][1000 genomes]
rs229650	0.87[ASN][1000 genomes]
rs229651	0.87[ASN][1000 genomes]
rs229655	0.87[ASN][1000 genomes]
rs229659	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs229660	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs229661	0.93[AFR][1000 genomes]
rs229663	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs229664	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs229665	0.89[EUR][1000 genomes]
rs41301473	1.00[ASN][1000 genomes]
rs41307086	0.95[ASN][1000 genomes]
rs58789159	1.00[ASN][1000 genomes]
rs73273513	0.87[ASN][1000 genomes]
rs73273517	0.91[ASN][1000 genomes]
rs73273524	1.00[ASN][1000 genomes]
rs73273534	1.00[ASN][1000 genomes]
rs73273536	1.00[ASN][1000 genomes]
rs73273546	0.91[ASN][1000 genomes]
rs73273549	1.00[ASN][1000 genomes]
rs754435	1.00[ASN][1000 genomes]
rs872296	1.00[ASN][1000 genomes]

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	nsv1049097	chr14:65027753-65202018	Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	esv1818582	chr14:65172898-65256685	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:65170000-65176600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
2	chr14:65170800-65174200	Active TSS	Brain Inferior Temporal Lobe	brain
3	chr14:65170800-65174400	Active TSS	Brain Angular Gyrus	brain
4	chr14:65171600-65174200	Flanking Active TSS	Fetal Muscle Leg	muscle
5	chr14:65171800-65177200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
6	chr14:65172000-65174000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr14:65172200-65174600	Flanking Active TSS	HepG2	liver
8	chr14:65172400-65174000	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr14:65172400-65174000	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr14:65172400-65174000	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr14:65172400-65174000	Flanking Active TSS	Rectal Smooth Muscle	rectum
12	chr14:65172400-65174000	Flanking Active TSS	Stomach Smooth Muscle	stomach
13	chr14:65172400-65174800	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
14	chr14:65172400-65174800	Weak transcription	Lung	lung
15	chr14:65172400-65175200	Enhancers	Sigmoid Colon	Sigmoid Colon
16	chr14:65172400-65176800	Enhancers	Small Intestine	intestine
17	chr14:65172600-65174000	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr14:65172600-65174000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr14:65172600-65174000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr14:65172600-65174000	Flanking Active TSS	Colon Smooth Muscle	Colon
21	chr14:65172600-65174000	Transcr. at gene 5' and 3'	Fetal Intestine Small	intestine
22	chr14:65172600-65174000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
23	chr14:65172600-65174400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
24	chr14:65172600-65174400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr14:65172600-65174800	Weak transcription	HUVEC	blood vessel
26	chr14:65172600-65175000	Enhancers	NHLF	lung
27	chr14:65172600-65175200	Flanking Active TSS	Brain Hippocampus Middle	brain
28	chr14:65172800-65174200	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr14:65172800-65174400	Weak transcription	Primary T cells from cord blood	blood
30	chr14:65172800-65174400	Weak transcription	HSMM	muscle
31	chr14:65172800-65174600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr14:65172800-65174600	Enhancers	Right Ventricle	heart
33	chr14:65172800-65174800	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr14:65172800-65175000	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
35	chr14:65172800-65175000	Enhancers	Primary monocytes fromperipheralblood	blood
36	chr14:65172800-65175200	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr14:65172800-65175200	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr14:65172800-65175600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
39	chr14:65172800-65176400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr14:65172800-65176400	Enhancers	Stomach Mucosa	stomach
41	chr14:65172800-65178000	Enhancers	Fetal Heart	heart
42	chr14:65173000-65174000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
43	chr14:65173000-65174000	Enhancers	Left Ventricle	heart
44	chr14:65173000-65174000	Weak transcription	Osteobl	bone
45	chr14:65173000-65175000	Weak transcription	Primary B cells from peripheral blood	blood
46	chr14:65173000-65175200	Enhancers	Primary hematopoietic stem cells	blood
47	chr14:65173000-65175200	Enhancers	Placenta	Placenta
48	chr14:65173000-65176400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
49	chr14:65173000-65177000	Enhancers	Pancreas	Pancrea
50	chr14:65173000-65177000	Enhancers	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links