Variant report

Variant	rs1359169
Chromosome Location	chr9:85890019-85890020
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	KAP1	chr9:85889632-85890024	U2OS	brain:	n/a	n/a
2	FOXA2	chr9:85889783-85890085	A549	lung:	n/a	n/a
3	FOXA2	chr9:85889780-85890095	A549	lung:	n/a	n/a

Variant related genes	Relation type
ENSG00000237529	TF binding region
RNU4-29P	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10735562	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10780584	0.82[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10780586	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs10867968	0.82[CEU][hapmap]
rs10867972	0.82[CEU][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes]
rs11792963	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs1323777	1.00[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1323780	0.82[CEU][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes]
rs1535746	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1547628	1.00[ASW][hapmap];0.82[CEU][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1570582	1.00[CEU][hapmap]
rs4877250	1.00[CEU][hapmap]
rs6559719	1.00[CEU][hapmap]
rs7872136	0.82[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs942281	0.82[CEU][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9695210	0.82[CEU][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv6586	chr9:85869828-85914812	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85854800-85890400	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr9:85856200-85910600	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr9:85866200-85913000	Weak transcription	Aorta	Aorta
4	chr9:85882000-85895800	Weak transcription	Fetal Kidney	kidney
5	chr9:85882000-85895800	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr9:85882200-85895800	Weak transcription	Gastric	stomach
7	chr9:85882200-85895800	Weak transcription	Ovary	ovary
8	chr9:85882200-85896000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:85883200-85895000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr9:85884200-85912400	Weak transcription	HepG2	liver
11	chr9:85885200-85896600	Weak transcription	Brain Angular Gyrus	brain
12	chr9:85885400-85896200	Weak transcription	Spleen	Spleen
13	chr9:85885400-85896400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:85885600-85895200	Weak transcription	Psoas Muscle	Psoas
15	chr9:85887200-85895600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr9:85887200-85895800	Weak transcription	Fetal Heart	heart
17	chr9:85887200-85895800	Weak transcription	Right Ventricle	heart
18	chr9:85888600-85896200	Weak transcription	Fetal Brain Male	brain
19	chr9:85889000-85890400	Strong transcription	Duodenum Smooth Muscle	Duodenum
20	chr9:85889400-85890200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr9:85889400-85890200	Strong transcription	Fetal Stomach	stomach
22	chr9:85889400-85892600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr9:85889600-85890400	Strong transcription	Left Ventricle	heart
24	chr9:85889800-85890600	Strong transcription	Pancreas	Pancrea
25	chr9:85890000-85895800	Weak transcription	Adipose Nuclei	Adipose

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