Variant report

Variant	rs1877447
Chromosome Location	chr9:8721943-8721944
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10122099	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10815926	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12375677	0.85[CEU][hapmap];0.91[JPT][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1368979	0.85[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1434260	0.81[CEU][hapmap];0.90[JPT][hapmap];0.86[YRI][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1473822	0.80[CHB][hapmap];0.86[JPT][hapmap];0.87[TSI][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1821429	0.81[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1865340	0.89[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1991931	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2053126	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4614053	0.81[EUR][1000 genomes]
rs62528779	0.83[EUR][1000 genomes]
rs6477327	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7866681	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7866922	1.00[ASW][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.97[LWK][hapmap];0.99[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs906635	0.80[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs906636	1.00[ASW][hapmap];1.00[CHB][hapmap];0.80[CHD][hapmap];0.90[JPT][hapmap];0.93[LWK][hapmap];0.99[MKK][hapmap];0.89[TSI][hapmap];0.86[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs980404	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv892235	chr9:8700396-8865925	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv6474	chr9:8706602-8751414	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1025800	chr9:8712487-9030627	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv539980	chr9:8712487-9030627	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1877447	INSL4	cis	parietal	SCAN

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8704400-8731800	Weak transcription	Fetal Lung	lung
2	chr9:8710600-8733600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:8715400-8723000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:8716200-8732600	Weak transcription	Fetal Brain Female	brain
5	chr9:8717800-8723400	Enhancers	Primary hematopoietic stem cells	blood
6	chr9:8718000-8724600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr9:8718400-8733600	Weak transcription	Psoas Muscle	Psoas
8	chr9:8718800-8724400	Weak transcription	Ovary	ovary
9	chr9:8718800-8730800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:8718800-8732800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr9:8719000-8723800	Weak transcription	Brain Angular Gyrus	brain
12	chr9:8719000-8725600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr9:8719000-8730800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr9:8719000-8733200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr9:8719000-8733200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:8719200-8722600	Weak transcription	Brain Hippocampus Middle	brain
17	chr9:8719400-8725600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr9:8719400-8727000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr9:8719600-8723200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr9:8720200-8724400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr9:8720400-8722000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:8720400-8723000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr9:8720600-8722000	Enhancers	Dnd41	blood
24	chr9:8720600-8723000	Weak transcription	Brain Substantia Nigra	brain
25	chr9:8720600-8731800	Weak transcription	Brain Anterior Caudate	brain
26	chr9:8720600-8732600	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr9:8721000-8724400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr9:8721000-8728800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr9:8721000-8732200	Weak transcription	HUES64 Cell Line	embryonic stem cell

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