Variant report

Variant	rs9971819
Chromosome Location	chr12:45164897-45164898
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TMEM117-4	chr12:45164508-45165212	l_632_chr12:45063675-45150311_ovary

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10128943	0.83[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11182663	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11182691	1.00[AMR][1000 genomes]
rs11182696	1.00[ASW][hapmap];0.83[YRI][hapmap]
rs12312116	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12315309	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12318030	1.00[ASW][hapmap];0.83[YRI][hapmap]
rs12319039	1.00[AMR][1000 genomes]
rs12322873	0.86[ASW][hapmap];1.00[LWK][hapmap];0.85[YRI][hapmap]
rs7137523	0.82[YRI][hapmap]
rs7973832	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][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	esv3378050	chr12:44963059-45264289	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv832394	chr12:45077573-45269305	Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
3	nsv1049080	chr12:45097564-45195295	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv1036926	chr12:45131884-45273648	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv541484	chr12:45131884-45273648	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45134400-45165200	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr12:45135400-45175000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr12:45145000-45172200	Weak transcription	Fetal Brain Female	brain
4	chr12:45145200-45169600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr12:45146800-45172200	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr12:45147400-45172200	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr12:45151800-45209200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr12:45153600-45185200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr12:45155800-45165200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr12:45156000-45173800	Weak transcription	Brain Germinal Matrix	brain
11	chr12:45157000-45205600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr12:45157200-45165200	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr12:45158600-45165400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr12:45159000-45168800	Weak transcription	Fetal Brain Male	brain
15	chr12:45159200-45169600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr12:45162000-45165400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr12:45164400-45165800	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr12:45164400-45166000	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr12:45164600-45165600	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr12:45164600-45166200	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr12:45164600-45166200	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr12:45164600-45169400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr12:45164800-45165200	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr12:45164800-45165600	Enhancers	ES-I3 Cell Line	embryonic stem cell

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