Variant report

Variant	rs56786997
Chromosome Location	chr10:112779529-112779530
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	chr10:112778849..112781525-chr10:112783454..112785651,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SHOC2-1	chr10:112778764-112782745	NONHSAT016379

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs56875008	0.91[AFR][1000 genomes]
rs61156928	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73343823	0.85[AFR][1000 genomes]
rs73343847	0.92[AFR][1000 genomes]
rs73343849	0.92[AFR][1000 genomes]
rs73343855	0.92[AFR][1000 genomes]
rs73343860	0.92[AFR][1000 genomes]
rs73343862	0.85[AFR][1000 genomes]
rs73343895	0.90[AFR][1000 genomes]
rs73343897	0.90[AFR][1000 genomes]
rs73343899	0.94[AFR][1000 genomes]
rs73345906	0.88[AFR][1000 genomes]
rs73345916	0.92[AFR][1000 genomes]
rs73345924	1.00[AFR][1000 genomes]
rs73347720	0.93[AFR][1000 genomes]
rs73347725	0.83[AFR][1000 genomes]
rs73360869	0.82[AFR][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	nsv1035602	chr10:112636053-112781413	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised 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	28 gene(s)	inside rSNPs	diseases
2	nsv831985	chr10:112652089-112803103	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv1048809	chr10:112683822-112781413	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv1042020	chr10:112686323-112795159	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1048444	chr10:112724159-112795159	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv1036202	chr10:112726834-112781413	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1051595	chr10:112730022-112789048	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
8	nsv1047412	chr10:112747749-112781413	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112705200-112789800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr10:112707200-112784200	Weak transcription	Left Ventricle	heart
3	chr10:112723200-112783000	Weak transcription	Small Intestine	intestine
4	chr10:112732600-112789400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr10:112732800-112782800	Weak transcription	Esophagus	oesophagus
6	chr10:112732800-112789400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr10:112738000-112782800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr10:112738200-112784600	Weak transcription	Ovary	ovary
9	chr10:112740400-112791800	Weak transcription	Colon Smooth Muscle	Colon
10	chr10:112746000-112783400	Weak transcription	Colonic Mucosa	Colon
11	chr10:112746800-112782800	Weak transcription	Psoas Muscle	Psoas
12	chr10:112747400-112779800	Weak transcription	Fetal Brain Male	brain
13	chr10:112747600-112785200	Weak transcription	Fetal Brain Female	brain
14	chr10:112749200-112789400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr10:112750400-112785000	Weak transcription	A549	lung
16	chr10:112753200-112779600	Weak transcription	Brain Anterior Caudate	brain
17	chr10:112753200-112782600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr10:112753200-112784200	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr10:112753400-112789600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr10:112754000-112782000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr10:112754000-112784800	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr10:112754400-112782600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr10:112757200-112782400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr10:112758200-112783600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr10:112761600-112781400	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr10:112761600-112782800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr10:112761800-112784200	Weak transcription	Spleen	Spleen
28	chr10:112762400-112780200	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr10:112763000-112781600	Weak transcription	Brain Germinal Matrix	brain
30	chr10:112763400-112781800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr10:112763600-112782400	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr10:112764400-112783000	Weak transcription	Brain Substantia Nigra	brain
33	chr10:112764800-112782600	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr10:112765000-112781200	Weak transcription	Thymus	Thymus
35	chr10:112765000-112781800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr10:112765000-112782200	Weak transcription	Fetal Muscle Leg	muscle
37	chr10:112765000-112782400	Weak transcription	Brain Cingulate Gyrus	brain
38	chr10:112765000-112782800	Weak transcription	Aorta	Aorta
39	chr10:112765000-112794200	Weak transcription	NH-A	brain
40	chr10:112765000-112794400	Weak transcription	NHLF	lung
41	chr10:112765200-112782600	Weak transcription	Fetal Muscle Trunk	muscle
42	chr10:112765200-112794200	Weak transcription	NHEK	skin
43	chr10:112767600-112780600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr10:112768600-112782200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr10:112769600-112780200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr10:112769600-112782200	Weak transcription	Osteobl	bone
47	chr10:112769800-112785600	Weak transcription	HUVEC	blood vessel
48	chr10:112770000-112782800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr10:112770800-112798800	Weak transcription	HMEC	breast
50	chr10:112771600-112782400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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