Variant report

Variant	rs11097642
Chromosome Location	chr4:99929768-99929769
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:99916695..99918934-chr4:99929378..99931142,3	MCF-7	breast:
2	chr4:99915640..99918575-chr4:99928207..99929960,2	MCF-7	breast:
3	chr4:99916096..99918907-chr4:99926368..99931117,8	K562	blood:
4	chr4:99928910..99931471-chr4:99936382..99940065,3	K562	blood:
5	chr4:99927753..99929345-chr4:99929639..99931295,2	K562	blood:
6	chr4:99927191..99931184-chr4:100009864..100011723,3	MCF-7	breast:
7	chr4:99928450..99930560-chr4:99946443..99948928,2	K562	blood:
8	chr4:99923178..99925511-chr4:99928281..99930397,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000164024	Chromatin interaction
ENSG00000265213	Chromatin interaction
ENSG00000197894	Chromatin interaction
ENSG00000246090	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10489131	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10489132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11726503	0.87[CHB][hapmap];0.80[CHD][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];0.82[ASN][1000 genomes]
rs11737022	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1230159	0.94[GIH][hapmap]
rs1230178	0.94[GIH][hapmap]
rs1230182	0.94[GIH][hapmap]
rs1230186	0.89[GIH][hapmap]
rs1230205	0.81[GIH][hapmap]
rs1230206	0.89[GIH][hapmap]
rs12508113	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12513260	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55985943	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs60067299	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7661773	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7683532	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[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7687617	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7694657	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009017	chr4:99669441-100406394	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99918200-99930200	Weak transcription	Fetal Brain Male	brain
2	chr4:99918200-99930200	Weak transcription	HSMM	muscle
3	chr4:99918200-99931000	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr4:99918200-99931400	Weak transcription	Fetal Muscle Leg	muscle
5	chr4:99918200-99935400	Weak transcription	Ovary	ovary
6	chr4:99918200-99935800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr4:99918200-99938000	Weak transcription	NHDF-Ad	bronchial
8	chr4:99918600-99930200	Weak transcription	Primary hematopoietic stem cells	blood
9	chr4:99918600-99930400	Weak transcription	Primary B cells from cord blood	blood
10	chr4:99918600-99937800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr4:99918600-99938600	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr4:99918800-99932200	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr4:99918800-99937800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr4:99919000-99930200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr4:99919000-99930200	Weak transcription	Primary T cells from cord blood	blood
16	chr4:99919200-99930400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr4:99919200-99940000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr4:99919200-99942000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr4:99919400-99931000	Weak transcription	Fetal Thymus	thymus
20	chr4:99919600-99930200	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr4:99920000-99937800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr4:99924000-99931200	Weak transcription	Fetal Intestine Small	intestine
23	chr4:99924000-99931600	Weak transcription	K562	blood
24	chr4:99924200-99941600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr4:99924200-99943600	Weak transcription	Gastric	stomach
26	chr4:99924600-99930200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr4:99924600-99935400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr4:99924600-99942000	Weak transcription	Fetal Lung	lung
29	chr4:99925200-99932200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr4:99925400-99940000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr4:99925600-99939800	Weak transcription	Thymus	Thymus
32	chr4:99925600-99941200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr4:99925600-99941200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr4:99925800-99931400	Weak transcription	Left Ventricle	heart
35	chr4:99925800-99938800	Weak transcription	Fetal Intestine Large	intestine
36	chr4:99927200-99930400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr4:99927400-99930000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr4:99928200-99930000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr4:99928400-99941400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr4:99928600-99931000	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr4:99928600-99933600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr4:99928600-99942400	Weak transcription	Esophagus	oesophagus
43	chr4:99929000-99930200	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr4:99929000-99935000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr4:99929200-99929800	Flanking Active TSS	HMEC	breast
46	chr4:99929200-99930200	Weak transcription	Dnd41	blood
47	chr4:99929200-99930400	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr4:99929200-99930800	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr4:99929200-99932400	Weak transcription	Fetal Heart	heart
50	chr4:99929200-99940600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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