Variant report

Variant	rs3789925
Chromosome Location	chr10:97888971-97888972
allele	G/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	MYC	chr10:97888951-97890857	A549	lung:	n/a	n/a
2	IRF1	chr10:97888506-97890795	K562	blood:	n/a	chr10:97889012-97889025 chr10:97889013-97889023 chr10:97889011-97889022 chr10:97889015-97889029 chr10:97889012-97889025 chr10:97889009-97889023 chr10:97889012-97889026 chr10:97889011-97889031 chr10:97889016-97889030 chr10:97889012-97889025 chr10:97889007-97889024 chr10:97889013-97889027 chr10:97889012-97889023 chr10:97888991-97889001 chr10:97889011-97889025
3	E2F6	chr10:97888940-97890601	H1-hESC	embryonic stem cell:	n/a	n/a
4	IRF1	chr10:97888540-97890515	K562	blood:	n/a	chr10:97889012-97889025 chr10:97889013-97889023 chr10:97889011-97889022 chr10:97889015-97889029 chr10:97889012-97889025 chr10:97889009-97889023 chr10:97889012-97889026 chr10:97889011-97889031 chr10:97889016-97889030 chr10:97889012-97889025 chr10:97889007-97889024 chr10:97889013-97889027 chr10:97889012-97889023 chr10:97888991-97889001 chr10:97889011-97889025
5	POLR2A	chr10:97888755-97891307	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:97888142..97890161-chr10:97948497..97950292,2	MCF-7	breast:
2	chr10:97802832..97806993-chr10:97887536..97891956,8	MCF-7	breast:
3	chr10:97802278..97809202-chr10:97887978..97892462,12	MCF-7	breast:
4	chr10:97798897..97809644-chr10:97883865..97893202,24	K562	blood:
5	chr10:97838555..97859010-chr10:97880529..97894933,78	K562	blood:
6	chr10:97847401..97854280-chr10:97883753..97891876,34	MCF-7	breast:
7	chr10:97821732..97826384-chr10:97888833..97893125,8	K562	blood:
8	chr10:97823412..97829271-chr10:97885375..97892097,8	K562	blood:
9	chr10:97847100..97852766-chr10:97886402..97893071,22	MCF-7	breast:
10	chr10:97821145..97824482-chr10:97888850..97891356,3	MCF-7	breast:
11	chr10:97845791..97859010-chr10:97880529..97895862,76	K562	blood:
12	chr10:97849316..97850266-chr10:97888828..97890559,6	MCF-7	breast:
13	chr10:97798897..97807548-chr10:97886918..97893342,17	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-BLNK-4	chr10:97888812-97890249	NONHSAT015794

Variant related genes	Relation type
ZNF518A	TF binding region
ENSG00000229417	Chromatin interaction
ENSG00000226688	Chromatin interaction
ENSG00000107443	Chromatin interaction
ENSG00000266407	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10509698	0.94[EUR][1000 genomes]
rs10509702	0.94[EUR][1000 genomes]
rs10509705	0.94[EUR][1000 genomes]
rs10786265	0.94[CHB][hapmap];0.83[JPT][hapmap];0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10882719	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.80[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10882720	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10882722	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10882724	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10882725	0.84[CHB][hapmap];0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs10882730	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs11188564	0.87[YRI][hapmap]
rs11188574	0.87[YRI][hapmap]
rs11188605	0.96[ASN][1000 genomes]
rs11188624	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs11188637	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs11188658	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs11813897	0.84[CHB][hapmap]
rs11814327	0.86[YRI][hapmap]
rs12573650	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12573660	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs1414916	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1556745	0.96[EUR][1000 genomes]
rs17111273	0.86[YRI][hapmap]
rs17111316	0.93[YRI][hapmap]
rs17383897	0.83[EUR][1000 genomes]
rs17385450	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17468599	0.83[EUR][1000 genomes]
rs17476608	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17476713	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2305844	0.85[YRI][hapmap]
rs2861240	0.96[EUR][1000 genomes]
rs3088372	0.94[ASN][1000 genomes]
rs3300	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.85[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs34965352	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3748225	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs3814228	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs3827856	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs41291594	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41291606	0.85[EUR][1000 genomes]
rs4917721	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4918987	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55675520	0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs57381231	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs59237347	0.96[ASN][1000 genomes]
rs60394088	0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs61729856	0.94[EUR][1000 genomes]
rs61731060	0.96[EUR][1000 genomes]
rs61858614	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61858615	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61858616	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61858617	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61858618	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61858619	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61858638	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61858640	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61858641	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61858642	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61858643	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61858644	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61858646	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61858649	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61858650	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61858652	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61858654	0.96[EUR][1000 genomes]
rs61858657	0.96[EUR][1000 genomes]
rs61858658	0.96[EUR][1000 genomes]
rs61859661	0.94[EUR][1000 genomes]
rs61859662	0.92[EUR][1000 genomes]
rs61869171	0.83[EUR][1000 genomes]
rs61869176	0.83[EUR][1000 genomes]
rs61869177	0.81[EUR][1000 genomes]
rs61869179	0.83[EUR][1000 genomes]
rs61869180	0.83[EUR][1000 genomes]
rs61869181	0.96[EUR][1000 genomes]
rs61869182	0.96[EUR][1000 genomes]
rs74151271	0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs74151274	0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9783259	0.93[YRI][hapmap]

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97884800-97889000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:97884800-97889000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr10:97884800-97889000	Weak transcription	HMEC	breast
4	chr10:97884800-97889200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr10:97884800-97889200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr10:97884800-97889200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr10:97884800-97889200	Weak transcription	Gastric	stomach
8	chr10:97884800-97889400	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr10:97885200-97889000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr10:97885200-97889000	Weak transcription	Placenta	Placenta
11	chr10:97885200-97889000	Weak transcription	NHEK	skin
12	chr10:97885200-97889200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr10:97885200-97889200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr10:97885200-97889400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr10:97885400-97889000	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr10:97885400-97889000	Weak transcription	A549	lung
17	chr10:97885400-97889400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr10:97885600-97889000	Weak transcription	Hela-S3	cervix
19	chr10:97885800-97889000	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr10:97888400-97889000	Flanking Active TSS	K562	blood
21	chr10:97888600-97889000	Enhancers	HepG2	liver
22	chr10:97888600-97889400	Active TSS	Right Atrium	heart
23	chr10:97888800-97889000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr10:97888800-97889000	Enhancers	Dnd41	blood

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