Variant report

Variant	rs10153449
Chromosome Location	chr19:35744429-35744430
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM187B-2	chr19:35744185-35744542	ENSG00000271366.1

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10403827	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11670645	1.00[EUR][1000 genomes]
rs6510476	0.85[CEU][hapmap]
rs7249136	0.96[EUR][1000 genomes]
rs73029956	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73029976	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73029981	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73045870	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1060100	chr19:35658505-36170042	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv543993	chr19:35658505-36170042	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
4	nsv1066553	chr19:35698638-35749563	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
5	nsv510765	chr19:35708226-35890668	Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
6	esv2758497	chr19:35711078-35887113	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
7	esv2758758	chr19:35711078-35887113	Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
8	nsv978896	chr19:35724047-35748472	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
9	nsv911618	chr19:35734107-35807845	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
10	esv1836312	chr19:35741456-35786868	Enhancers Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10153449	LSR	cis	Esophagus Muscularis	GTEx

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:35740400-35744600	Weak transcription	Left Ventricle	heart
2	chr19:35740600-35745200	Weak transcription	Right Atrium	heart
3	chr19:35740600-35748000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr19:35740600-35748200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr19:35740800-35747000	Weak transcription	Small Intestine	intestine
6	chr19:35740800-35747400	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr19:35741000-35746000	Weak transcription	Fetal Heart	heart
8	chr19:35741000-35747400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr19:35741000-35748000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr19:35741000-35748200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr19:35741200-35744600	Weak transcription	Right Ventricle	heart
12	chr19:35741200-35744800	Weak transcription	Primary B cells from peripheral blood	blood
13	chr19:35741200-35745400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr19:35741200-35758000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr19:35741400-35745400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr19:35741400-35748200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr19:35741400-35757800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr19:35741600-35744600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr19:35741600-35744600	Strong transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr19:35741600-35744600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr19:35741600-35747000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr19:35741600-35747000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr19:35741600-35747800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr19:35741600-35748200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr19:35741800-35745200	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr19:35741800-35746800	Genic enhancers	Liver	Liver
27	chr19:35742000-35756200	Strong transcription	NHEK	skin
28	chr19:35742400-35746000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr19:35742600-35745200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr19:35742600-35748000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr19:35742600-35755200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr19:35742800-35746200	Strong transcription	Fetal Intestine Small	intestine
33	chr19:35742800-35747400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr19:35743200-35745400	Weak transcription	HMEC	breast
35	chr19:35743200-35750600	Weak transcription	K562	blood
36	chr19:35743400-35746000	Weak transcription	Gastric	stomach
37	chr19:35743400-35746800	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr19:35743600-35745400	Genic enhancers	iPS-18 Cell Line	embryonic stem cell
39	chr19:35743800-35744800	Strong transcription	Colonic Mucosa	Colon
40	chr19:35743800-35745600	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
41	chr19:35743800-35756600	Strong transcription	Rectal Mucosa Donor 29	rectum
42	chr19:35744000-35746600	Strong transcription	Rectal Mucosa Donor 31	rectum
43	chr19:35744200-35744600	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr19:35744200-35744600	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
45	chr19:35744200-35744800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
46	chr19:35744200-35744800	Genic enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr19:35744200-35744800	Genic enhancers	HUES48 Cell Line	embryonic stem cell
48	chr19:35744200-35744800	Enhancers	Placenta	Placenta
49	chr19:35744200-35745600	Genic enhancers	HUES6 Cell Line	embryonic stem cell
50	chr19:35744200-35745600	Strong transcription	Sigmoid Colon	Sigmoid Colon

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