Variant report

Variant	rs13105907
Chromosome Location	chr4:8489819-8489820
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:65304873..65306373-chr4:8489178..8490772,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000142186	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10938716	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10938717	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13105415	0.96[ASN][1000 genomes]
rs13106582	0.94[ASN][1000 genomes]
rs13111630	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13120514	0.96[ASN][1000 genomes]
rs13120605	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13121817	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13122276	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13129077	0.92[ASN][1000 genomes]
rs13132875	0.92[ASN][1000 genomes]
rs13141535	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13147943	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16842355	0.98[ASN][1000 genomes]
rs34053441	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34465110	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34681013	0.89[EUR][1000 genomes]
rs34935132	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35769879	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs36122693	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3775895	0.82[ASN][1000 genomes]
rs3796763	1.00[ASN][1000 genomes]
rs3806811	0.92[ASN][1000 genomes]
rs56786736	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60080531	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6811968	0.98[ASN][1000 genomes]
rs6813502	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6816430	0.94[ASN][1000 genomes]
rs6832505	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6832668	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73089514	0.90[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7670021	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002794	chr4:8110083-8490934	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv878604	chr4:8315938-8618916	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv1002680	chr4:8357163-8721214	Active TSS Flanking Active TSS Strong transcription Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv829854	chr4:8402921-8506407	Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:8473600-8501400	Weak transcription	Brain Substantia Nigra	brain
2	chr4:8475600-8491400	Weak transcription	Aorta	Aorta
3	chr4:8475800-8491800	Weak transcription	Colon Smooth Muscle	Colon
4	chr4:8478000-8500200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr4:8478200-8491400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr4:8478600-8490400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr4:8478600-8492000	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr4:8479200-8501400	Weak transcription	Liver	Liver
9	chr4:8479400-8491200	Weak transcription	Rectal Smooth Muscle	rectum
10	chr4:8479600-8490800	Weak transcription	Primary B cells from peripheral blood	blood
11	chr4:8479600-8490800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr4:8479800-8494600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr4:8480000-8493000	Weak transcription	Gastric	stomach
14	chr4:8480200-8498400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr4:8480200-8501400	Weak transcription	Brain Hippocampus Middle	brain
16	chr4:8480600-8498200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr4:8480800-8497400	Weak transcription	Spleen	Spleen
18	chr4:8481400-8490400	Weak transcription	Fetal Brain Female	brain
19	chr4:8481400-8490400	Weak transcription	Lung	lung
20	chr4:8481400-8490400	Weak transcription	Ovary	ovary
21	chr4:8481400-8491800	Weak transcription	Esophagus	oesophagus
22	chr4:8481400-8495200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr4:8481400-8496800	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr4:8481400-8501400	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr4:8481600-8493200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr4:8481800-8490600	Weak transcription	Fetal Stomach	stomach
27	chr4:8481800-8491800	Weak transcription	Fetal Muscle Trunk	muscle
28	chr4:8481800-8497400	Weak transcription	Fetal Muscle Leg	muscle
29	chr4:8482200-8495000	Weak transcription	Brain Germinal Matrix	brain
30	chr4:8482200-8501400	Weak transcription	Primary T cells from cord blood	blood
31	chr4:8483800-8494400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr4:8484200-8497000	Weak transcription	Placenta	Placenta
33	chr4:8488000-8490800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr4:8488800-8490400	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr4:8489000-8492200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr4:8489200-8490600	Weak transcription	K562	blood

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