Variant report

Variant	rs13107617
Chromosome Location	chr4:110757803-110757804
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10020617	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10022841	0.95[CHB][hapmap]
rs10365	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11930428	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11937249	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12510851	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs12513108	1.00[CHB][hapmap]
rs13128301	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13141065	0.95[CHB][hapmap]
rs13150454	1.00[CHB][hapmap]
rs1990250	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2190908	0.81[AMR][1000 genomes]
rs2347129	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2347132	0.81[CHB][hapmap]
rs3188897	0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35386791	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35646628	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3775961	1.00[CHB][hapmap]
rs4035486	0.80[AMR][1000 genomes]
rs4422417	0.95[CHB][hapmap]
rs4698749	1.00[CHB][hapmap]
rs4698797	0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6814789	0.83[JPT][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6827802	0.80[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6842245	0.94[CHB][hapmap]
rs7438763	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs764205	0.83[JPT][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7654140	0.80[AMR][1000 genomes]
rs7654660	0.83[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7657133	0.90[CHB][hapmap]
rs7664699	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7679303	0.80[AMR][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	nsv530156	chr4:110721397-110911297	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13107617	LRIT3	cis	Nerve Tibial	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110737600-110770600	Weak transcription	Aorta	Aorta
2	chr4:110738000-110760800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr4:110742200-110764400	Weak transcription	Brain Hippocampus Middle	brain
4	chr4:110744000-110759600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr4:110744400-110774400	Weak transcription	Psoas Muscle	Psoas
6	chr4:110744600-110773200	Weak transcription	Primary T cells from cord blood	blood
7	chr4:110746400-110764000	Weak transcription	Primary B cells from cord blood	blood
8	chr4:110746600-110761200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr4:110746800-110759400	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr4:110746800-110767600	Weak transcription	Duodenum Mucosa	Duodenum
11	chr4:110747600-110758400	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr4:110757400-110758000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr4:110757600-110758000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr4:110757800-110762200	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr4:110757800-110772800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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