Variant report

Variant	rs12260997
Chromosome Location	chr10:98066286-98066287
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	chr10:98062204..98064987-chr10:98065467..98068204,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DNTT-1	chr10:98066266-98066452	ENSG00000229418.1
2	lnc-BLNK-3	chr10:98066266-98066460	NONHSAT015809
3	lnc-BLNK-3	chr10:98066266-98066452	ENSG00000229418.2

Variant related genes	Relation type
ENSG00000107447	Chromatin interaction

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

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

rs_ID	r²[population]
rs11813386	1.00[EUR][1000 genomes]
rs12252547	1.00[EUR][1000 genomes]
rs12258827	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12261067	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12268870	1.00[EUR][1000 genomes]
rs56746031	1.00[EUR][1000 genomes]
rs57155025	1.00[EUR][1000 genomes]
rs58744084	1.00[EUR][1000 genomes]
rs60349635	1.00[EUR][1000 genomes]
rs7094141	0.85[AFR][1000 genomes]
rs74153617	1.00[EUR][1000 genomes]
rs74153623	1.00[EUR][1000 genomes]
rs74153626	0.88[AFR][1000 genomes]
rs74153629	0.88[AFR][1000 genomes]
rs7896411	1.00[EUR][1000 genomes]
rs7916154	1.00[GIH][hapmap];1.00[TSI][hapmap];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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	esv2761620	chr10:98047045-98089749	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98060000-98068000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:98061400-98067800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr10:98061800-98066400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr10:98061800-98066400	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr10:98063200-98067200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:98064200-98069400	Active TSS	Thymus	Thymus
7	chr10:98064800-98067000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr10:98065200-98068800	Weak transcription	Right Atrium	heart
9	chr10:98065600-98066600	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
10	chr10:98065600-98068200	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr10:98065800-98066800	Enhancers	Primary hematopoietic stem cells	blood
12	chr10:98065800-98067000	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr10:98065800-98067200	Bivalent Enhancer	Primary B cells from peripheral blood	blood
14	chr10:98065800-98067200	Flanking Active TSS	Fetal Thymus	thymus
15	chr10:98066000-98066400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
16	chr10:98066000-98066800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
17	chr10:98066000-98067000	Enhancers	Primary B cells from cord blood	blood
18	chr10:98066200-98066400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr10:98066200-98066400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr10:98066200-98066400	Bivalent Enhancer	Fetal Lung	lung
21	chr10:98066200-98066400	Enhancers	Spleen	Spleen
22	chr10:98066200-98066600	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr10:98066200-98066600	Enhancers	Colon Smooth Muscle	Colon
24	chr10:98066200-98066600	Enhancers	Psoas Muscle	Psoas
25	chr10:98066200-98066800	Enhancers	Primary T killer memory cells from peripheral blood	blood
26	chr10:98066200-98066800	Enhancers	Brain Hippocampus Middle	brain
27	chr10:98066200-98067000	Enhancers	Primary T helper naive cells from peripheral blood	blood
28	chr10:98066200-98067000	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
29	chr10:98066200-98067000	Transcr. at gene 5' and 3'	Dnd41	blood
30	chr10:98066200-98067000	Enhancers	GM12878-XiMat	blood
31	chr10:98066200-98067200	Enhancers	Monocytes-CD14+_RO01746	blood
32	chr10:98066200-98068000	Enhancers	HUES6 Cell Line	embryonic stem cell

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