Variant report

Variant	rs61096197
Chromosome Location	chr10:89638616-89638617
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:89620447..89623271-chr10:89637766..89641518,4	MCF-7	breast:
2	chr10:89621343..89626061-chr10:89634894..89638873,7	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PAPSS2-2	chr10:89638449-89638780	ENSG00000224745.1

Variant related genes	Relation type
ENSG00000227268	Chromatin interaction
ENSG00000171862	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs17102281	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17106896	0.97[EUR][1000 genomes]
rs34417600	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34981965	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34986811	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35161364	0.89[EUR][1000 genomes]
rs35876089	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs41284074	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59085061	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7069904	0.89[EUR][1000 genomes]
rs73354918	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7921925	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044700	chr10:89615125-89641293	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
2	esv1793643	chr10:89625582-89645473	Weak transcription Enhancers Active TSS Strong transcription Flanking Active 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	5 gene(s)	inside rSNPs	diseases
3	esv1793518	chr10:89625582-89733420	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking 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 target site	10 gene(s)	inside rSNPs	diseases
4	esv1798260	chr10:89625582-89733420	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv1035278	chr10:89629273-89641293	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv551832	chr10:89630424-89650759	Strong transcription Transcr. at gene 5' and 3' Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1050406	chr10:89632138-89657906	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	esv275087	chr10:89632510-89642848	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89624400-89646400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:89625600-89663000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr10:89627200-89645800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr10:89627600-89645600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr10:89628200-89646200	Weak transcription	Fetal Muscle Leg	muscle
6	chr10:89628200-89646600	Weak transcription	Colonic Mucosa	Colon
7	chr10:89628400-89662000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr10:89628600-89645800	Weak transcription	HSMMtube	muscle
9	chr10:89628800-89645600	Weak transcription	Fetal Kidney	kidney
10	chr10:89628800-89647000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr10:89629400-89646200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr10:89629800-89644600	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr10:89630000-89645600	Weak transcription	NH-A	brain
14	chr10:89631000-89645600	Weak transcription	Fetal Brain Female	brain
15	chr10:89631000-89645800	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr10:89631000-89647400	Weak transcription	Fetal Brain Male	brain
17	chr10:89631000-89663400	Weak transcription	Brain Angular Gyrus	brain
18	chr10:89631600-89645400	Weak transcription	Duodenum Mucosa	Duodenum
19	chr10:89631600-89647400	Weak transcription	Gastric	stomach
20	chr10:89631600-89647400	Weak transcription	Psoas Muscle	Psoas
21	chr10:89633000-89642200	Weak transcription	Colon Smooth Muscle	Colon
22	chr10:89633000-89663400	Weak transcription	Pancreas	Pancrea
23	chr10:89633400-89644600	Weak transcription	Thymus	Thymus
24	chr10:89633400-89645200	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr10:89633400-89645600	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr10:89633400-89645600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr10:89633400-89645600	Weak transcription	Left Ventricle	heart
28	chr10:89633400-89645800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr10:89633400-89645800	Weak transcription	Fetal Stomach	stomach
30	chr10:89633400-89645800	Weak transcription	Lung	lung
31	chr10:89633400-89646000	Weak transcription	Ovary	ovary
32	chr10:89633400-89646400	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr10:89633400-89646600	Weak transcription	Stomach Smooth Muscle	stomach
34	chr10:89633400-89647400	Weak transcription	Brain Cingulate Gyrus	brain
35	chr10:89633400-89675800	Weak transcription	Small Intestine	intestine
36	chr10:89633800-89655600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr10:89634000-89645400	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr10:89634000-89646800	Weak transcription	HepG2	liver
39	chr10:89634200-89645600	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr10:89634200-89645800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr10:89634200-89646400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr10:89634400-89641800	Weak transcription	Rectal Smooth Muscle	rectum
43	chr10:89634600-89640600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr10:89634800-89644600	Weak transcription	A549	lung
45	chr10:89635000-89640600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr10:89635000-89645600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr10:89635200-89638800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr10:89635200-89642200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr10:89635200-89644800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr10:89635800-89642000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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