Variant report

Variant	rs748566
Chromosome Location	chr15:99965702-99965703
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:99964977..99967345-chr15:100103742..100106400,3	MCF-7	breast:
2	chr15:99965407..99967484-chr15:99969675..99971240,2	K562	blood:
3	chr15:99960211..99963086-chr15:99964919..99968237,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TTC23-5	chr15:99964546-99965708	l_1247_chr15:99961345-99972053_liver

Variant related genes	Relation type
ENSG00000068305	Chromatin interaction
ENSG00000259341	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11247093	1.00[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11635020	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7182043	1.00[CEU][hapmap]
rs73474843	0.85[AFR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055008	chr15:99477144-100019861	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv904543	chr15:99513231-99991506	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv533926	chr15:99519820-99997114	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	nsv915926	chr15:99519820-100138705	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
5	nsv817289	chr15:99621061-100138705	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
6	nsv431411	chr15:99621061-100143999	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
7	nsv904546	chr15:99696046-100166300	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
8	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
9	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
10	nsv1051560	chr15:99837102-100124483	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
11	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
12	nsv904547	chr15:99940221-99979159	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv904548	chr15:99940221-99979418	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv904549	chr15:99940221-99991506	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
15	nsv519800	chr15:99950772-99987109	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv904550	chr15:99954278-99978524	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
17	nsv904551	chr15:99954278-99979418	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
18	nsv904552	chr15:99954278-99982447	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
19	nsv904553	chr15:99954278-99983175	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
20	nsv904554	chr15:99956954-99979418	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
21	nsv904555	chr15:99956954-99981269	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
22	nsv904556	chr15:99956954-99987109	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
23	nsv904557	chr15:99956954-99991506	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:99944800-99972400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr15:99950800-99965800	Weak transcription	Aorta	Aorta
3	chr15:99957200-99973200	Weak transcription	Gastric	stomach
4	chr15:99961000-99966800	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr15:99961600-99966800	Enhancers	Primary T helper naive cells from peripheral blood	blood
6	chr15:99962800-99966600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr15:99963200-99966800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr15:99963400-99967400	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr15:99963600-99966400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr15:99963600-99966800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr15:99963600-99966800	Enhancers	Fetal Thymus	thymus
12	chr15:99963600-99967200	Enhancers	Left Ventricle	heart
13	chr15:99964000-99967600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr15:99964200-99966600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
15	chr15:99964200-99966600	Enhancers	Brain Hippocampus Middle	brain
16	chr15:99964200-99967200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr15:99964200-99967200	Enhancers	Lung	lung
18	chr15:99964400-99966800	Enhancers	Right Ventricle	heart
19	chr15:99964400-99967200	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr15:99964600-99966600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr15:99964600-99966600	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr15:99964600-99966600	Enhancers	Primary hematopoietic stem cells	blood
23	chr15:99964600-99966800	Enhancers	Primary T killer memory cells from peripheral blood	blood
24	chr15:99964600-99967000	Enhancers	Placenta Amnion	Placenta Amnion
25	chr15:99964600-99967000	Enhancers	HepG2	liver
26	chr15:99964600-99967200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr15:99964800-99966000	Enhancers	Brain Anterior Caudate	brain
28	chr15:99964800-99966200	Enhancers	Muscle Satellite Cultured Cells	--
29	chr15:99964800-99966200	Enhancers	Colon Smooth Muscle	Colon
30	chr15:99964800-99966400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr15:99964800-99966400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
32	chr15:99964800-99966400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr15:99964800-99966400	Enhancers	Fetal Muscle Leg	muscle
34	chr15:99964800-99966400	Enhancers	GM12878-XiMat	blood
35	chr15:99964800-99966400	Enhancers	HMEC	breast
36	chr15:99964800-99966600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr15:99964800-99966600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr15:99964800-99966600	Enhancers	Rectal Smooth Muscle	rectum
39	chr15:99964800-99966600	Enhancers	Dnd41	blood
40	chr15:99964800-99966600	Enhancers	NHEK	skin
41	chr15:99964800-99966800	Enhancers	Primary B cells from peripheral blood	blood
42	chr15:99964800-99966800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr15:99964800-99966800	Enhancers	HUVEC	blood vessel
44	chr15:99964800-99967000	Enhancers	Primary hematopoietic stem cells short term culture	blood
45	chr15:99964800-99967000	Enhancers	Adipose Nuclei	Adipose
46	chr15:99964800-99967000	Enhancers	NH-A	brain
47	chr15:99964800-99967200	Enhancers	Skeletal Muscle Female	skeletal muscle
48	chr15:99965000-99966000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr15:99965000-99966000	Flanking Active TSS	Hela-S3	cervix
50	chr15:99965000-99966000	Enhancers	HSMM	muscle

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