Variant report

Variant	rs13134231
Chromosome Location	chr4:99477412-99477413
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10018825	0.95[JPT][hapmap]
rs10021296	0.94[JPT][hapmap]
rs11097621	0.90[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11730384	0.91[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13114571	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13132635	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13141997	0.81[YRI][hapmap]
rs13149070	0.94[JPT][hapmap]
rs17191936	0.81[CHB][hapmap]
rs17192060	0.82[CHB][hapmap]
rs1919211	0.96[CEU][hapmap];0.94[JPT][hapmap]
rs2866017	0.95[JPT][hapmap]
rs4699345	0.88[CEU][hapmap]
rs4699346	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4699650	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4699651	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4699652	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6532742	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6532744	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6532745	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6532747	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6532748	0.92[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs6827510	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6831464	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6831643	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6837359	0.82[CEU][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6846287	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6854339	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7672134	0.94[JPT][hapmap]
rs7695093	0.83[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	esv2754250	chr4:99094922-99527122	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1004181	chr4:99208152-99529576	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv2760882	chr4:99460485-99521345	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99459200-99479600	Weak transcription	Spleen	Spleen
2	chr4:99463800-99478800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr4:99466600-99479800	Weak transcription	Fetal Thymus	thymus
4	chr4:99466800-99501600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr4:99468400-99482200	Weak transcription	Esophagus	oesophagus
6	chr4:99469000-99482800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr4:99475200-99482400	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr4:99475400-99478200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr4:99475400-99481400	Enhancers	Brain Hippocampus Middle	brain
10	chr4:99475400-99482000	Enhancers	Brain Cingulate Gyrus	brain
11	chr4:99475400-99482200	Enhancers	Brain Angular Gyrus	brain
12	chr4:99475600-99480600	Enhancers	Brain Germinal Matrix	brain
13	chr4:99475600-99481400	Enhancers	Brain Substantia Nigra	brain
14	chr4:99475800-99479200	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr4:99475800-99479400	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr4:99475800-99482200	Enhancers	Brain Inferior Temporal Lobe	brain
17	chr4:99476000-99477600	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr4:99476000-99477600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr4:99476000-99477800	Enhancers	H1 Cell Line	embryonic stem cell
20	chr4:99476000-99477800	Enhancers	Brain Anterior Caudate	brain
21	chr4:99476000-99479000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr4:99476000-99479200	Enhancers	Muscle Satellite Cultured Cells	--
23	chr4:99476000-99479200	Enhancers	HUVEC	blood vessel
24	chr4:99476000-99479400	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr4:99476000-99479600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr4:99476000-99479800	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr4:99476000-99481200	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr4:99476000-99482200	Enhancers	Fetal Brain Female	brain
29	chr4:99476200-99477800	Enhancers	Ovary	ovary
30	chr4:99476200-99478000	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr4:99476200-99479200	Enhancers	Osteobl	bone
32	chr4:99476400-99478400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr4:99476600-99479200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr4:99476800-99477800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr4:99476800-99479200	Enhancers	NH-A	brain
36	chr4:99477000-99477600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr4:99477000-99477800	Enhancers	HMEC	breast
38	chr4:99477000-99479400	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr4:99477200-99477800	Enhancers	Fetal Muscle Leg	muscle
40	chr4:99477200-99478400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr4:99477200-99478400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr4:99477200-99478400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr4:99477200-99478600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr4:99477200-99479200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr4:99477200-99479200	Enhancers	NHLF	lung
46	chr4:99477200-99479800	Enhancers	NHDF-Ad	bronchial
47	chr4:99477200-99482800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr4:99477400-99478400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr4:99477400-99478400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr4:99477400-99478400	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links