Variant report

Variant	rs7724403
Chromosome Location	chr5:118227103-118227104
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10519564	1.00[CHB][hapmap]
rs11959589	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12109156	0.90[CEU][hapmap];1.00[CHB][hapmap]
rs12109252	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes]
rs1448479	1.00[JPT][hapmap]
rs1510971	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs1567520	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17132677	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs17144552	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17144714	1.00[JPT][hapmap]
rs17144824	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs17144836	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs17144872	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17144877	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17144883	1.00[JPT][hapmap]
rs17144885	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17144893	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17381247	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs17440213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2029036	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2084460	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2115301	1.00[JPT][hapmap]
rs2217310	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs2376854	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2377127	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs28640997	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3813297	1.00[JPT][hapmap]
rs3813298	1.00[JPT][hapmap]
rs4392657	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4634381	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs4895184	1.00[JPT][hapmap]
rs4895353	1.00[JPT][hapmap]
rs4895354	1.00[JPT][hapmap]
rs56004980	0.81[AFR][1000 genomes]
rs56034428	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57186800	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57503789	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58737380	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60688439	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6860946	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs6862297	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6863802	1.00[CHB][hapmap]
rs6870923	0.80[CEU][hapmap];1.00[CHB][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes]
rs6874399	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs6880144	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs6892437	0.90[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs6896086	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73789435	0.93[EUR][1000 genomes]
rs73790355	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs73792413	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73792414	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7706037	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7710339	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7724753	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7734815	0.90[CEU][hapmap];1.00[CHB][hapmap]
rs7737716	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs822743	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882767	chr5:117931730-118385691	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv599562	chr5:118122504-118230640	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv882771	chr5:118170135-118230640	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv882772	chr5:118173127-118230640	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv882773	chr5:118175640-118241854	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv599563	chr5:118191798-118241854	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:118216600-118244800	Weak transcription	Primary T cells from cord blood	blood
2	chr5:118218800-118240600	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr5:118219200-118227200	Weak transcription	Brain Anterior Caudate	brain
4	chr5:118219400-118227200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr5:118225000-118247000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:118225400-118300400	Weak transcription	Primary B cells from cord blood	blood
7	chr5:118226800-118227400	Enhancers	Pancreatic Islets	Pancreatic Islet
8	chr5:118226800-118227600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr5:118227000-118227200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr5:118227000-118227200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
11	chr5:118227000-118227400	Enhancers	H1 Cell Line	embryonic stem cell
12	chr5:118227000-118227400	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr5:118227000-118227400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr5:118227000-118227400	Enhancers	Brain Hippocampus Middle	brain
15	chr5:118227000-118227400	Enhancers	Fetal Brain Female	brain
16	chr5:118227000-118227400	Enhancers	Fetal Heart	heart
17	chr5:118227000-118227400	Enhancers	Ovary	ovary
18	chr5:118227000-118227400	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr5:118227000-118227600	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr5:118227000-118227600	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links