Variant report

Variant	rs544410301
Chromosome Location	chr9:71736556-71736557
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:149223425..149225310-chr9:71736139..71738412,2	MCF-7	breast:
2	chr3:49066502..49067181-chr9:71736337..71736850,2	Hela-S3	cervix:
3	chr6:41040678..41041408-chr9:71735768..71736686,2	Hela-S3	cervix:
4	chr9:71720044..71724145-chr9:71733178..71738087,7	MCF-7	breast:
5	chr9:71736348..71739276-chr9:71751743..71753516,2	MCF-7	breast:
6	chr9:71734142..71739001-chr9:71788032..71795507,11	MCF-7	breast:
7	chr9:71736310..71738206-chr9:71797242..71798901,2	MCF-7	breast:
8	chr9:71736483..71737290-chr9:71808170..71808758,2	MCF-7	breast:
9	chr3:45017283..45018160-chr9:71735845..71736825,2	Hela-S3	cervix:
10	chr9:71735373..71738833-chr9:71764136..71766985,4	MCF-7	breast:
11	chr13:48611578..48612294-chr9:71736012..71736825,2	Hela-S3	cervix:
12	chr13:113241435..113242373-chr9:71735991..71736661,2	Hela-S3	cervix:
13	chr9:71733168..71738729-chr9:71786929..71793777,10	MCF-7	breast:
14	chr1:62208097..62208620-chr9:71736404..71737107,2	Hela-S3	cervix:
15	chr1:146555490..146556430-chr9:71736325..71736974,2	Hela-S3	cervix:
16	chr9:71649472..71654369-chr9:71735388..71737779,6	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TJP2-1	chr9:71736400-71737148	ENSG00000227410.1

No data

Variant related genes	Relation type
ENSG00000206737	Chromatin interaction
ENSG00000270236	Chromatin interaction
ENSG00000001167	Chromatin interaction
ENSG00000272434	Chromatin interaction
ENSG00000075914	Chromatin interaction
ENSG00000132849	Chromatin interaction
ENSG00000136143	Chromatin interaction
ENSG00000178035	Chromatin interaction
ENSG00000119139	Chromatin interaction
ENSG00000126216	Chromatin interaction
ENSG00000165060	Chromatin interaction
ENSG00000163812	Chromatin interaction
ENSG00000136159	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:35 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051723	chr9:71398713-71971285	Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv1053402	chr9:71399722-71819949	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv540146	chr9:71399722-71819949	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
4	nsv1043689	chr9:71399922-71800338	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv540147	chr9:71399922-71800338	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv1047540	chr9:71401918-71803639	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	nsv931684	chr9:71417110-71957723	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
8	nsv1049175	chr9:71418242-71986910	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh 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	31 gene(s)	inside rSNPs	diseases
9	nsv1035823	chr9:71465139-71901672	Genic enhancers Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
10	nsv466396	chr9:71471912-71935577	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
11	nsv614548	chr9:71471912-71935577	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats 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	25 gene(s)	inside rSNPs	diseases
12	nsv1051798	chr9:71511805-71792032	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
13	nsv1035477	chr9:71511927-71959487	Enhancers Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
14	nsv466397	chr9:71574757-71843023	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
15	nsv614550	chr9:71574757-71843023	Flanking Active TSS Weak transcription Genic enhancers Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
16	nsv1050692	chr9:71578494-71843023	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
17	nsv893416	chr9:71597840-71888601	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
18	nsv1040539	chr9:71600042-71844108	Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
19	nsv540149	chr9:71600042-71844108	Strong transcription Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
20	nsv949664	chr9:71607398-71842391	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
21	nsv948708	chr9:71632265-71842391	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
22	nsv1037787	chr9:71635338-71807648	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
23	nsv540151	chr9:71635338-71807648	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
24	nsv817209	chr9:71675454-71829412	Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
25	nsv817406	chr9:71675454-72179318	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
26	nsv508550	chr9:71679166-71809433	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
27	nsv6550	chr9:71714144-71760048	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a
28	esv1798602	chr9:71718195-71764191	Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a
29	esv3398013	chr9:71722447-71746627	Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a
30	esv3427257	chr9:71725447-71746948	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a
31	esv1815650	chr9:71733603-71743100	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a
32	esv1840396	chr9:71733603-71743100	Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a
33	nsv511419	chr9:71733603-71746253	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a
34	esv3481646	chr9:71736132-71745230	Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a
35	nsv435879	chr9:71736168-71743663	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:71729800-71745600	Weak transcription	K562	blood
2	chr9:71734800-71737800	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr9:71734800-71737800	Active TSS	H9 Cell Line	embryonic stem cell
4	chr9:71735000-71737600	Active TSS	Pancreas	Pancrea
5	chr9:71735000-71737800	Active TSS	HUES48 Cell Line	embryonic stem cell
6	chr9:71735000-71737800	Active TSS	iPS-15b Cell Line	embryonic stem cell
7	chr9:71735000-71738200	Active TSS	iPS-20b Cell Line	embryonic stem cell
8	chr9:71735000-71738200	Active TSS	Fetal Intestine Large	intestine
9	chr9:71735200-71736600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr9:71735200-71737400	Active TSS	Primary T cells from cord blood	blood
11	chr9:71735200-71738000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
12	chr9:71735200-71738000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:71735200-71738200	Active TSS	H1 Cell Line	embryonic stem cell
14	chr9:71735200-71738200	Active TSS	Fetal Intestine Small	intestine
15	chr9:71735200-71738400	Active TSS	Rectal Mucosa Donor 29	rectum
16	chr9:71735400-71737400	Active TSS	Rectal Smooth Muscle	rectum
17	chr9:71735400-71737400	Active TSS	Stomach Smooth Muscle	stomach
18	chr9:71735400-71737600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
19	chr9:71735400-71737600	Active TSS	Esophagus	oesophagus
20	chr9:71735400-71737600	Active TSS	Fetal Kidney	kidney
21	chr9:71735400-71737800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr9:71735400-71738000	Flanking Active TSS	Primary hematopoietic stem cells	blood
23	chr9:71735600-71737200	Active TSS	Stomach Mucosa	stomach
24	chr9:71735600-71737400	Active TSS	Brain Cingulate Gyrus	brain
25	chr9:71735600-71737400	Active TSS	Duodenum Mucosa	Duodenum
26	chr9:71735600-71737400	Active TSS	A549	lung
27	chr9:71735600-71737600	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr9:71735600-71737600	Active TSS	HUES6 Cell Line	embryonic stem cell
29	chr9:71735600-71737600	Active TSS	iPS-18 Cell Line	embryonic stem cell
30	chr9:71735600-71737600	Active TSS	Breast Myoepithelial Primary Cells	Breast
31	chr9:71735600-71737600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr9:71735600-71737600	Active TSS	Brain Anterior Caudate	brain
33	chr9:71735600-71737600	Active TSS	Placenta Amnion	Placenta Amnion
34	chr9:71735600-71737600	Active TSS	Right Ventricle	heart
35	chr9:71735600-71737600	Active TSS	Thymus	Thymus
36	chr9:71735600-71737800	Active TSS	HUES64 Cell Line	embryonic stem cell
37	chr9:71735600-71738000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
38	chr9:71735800-71736800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
39	chr9:71735800-71736800	Active TSS	HepG2	liver
40	chr9:71735800-71737000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr9:71735800-71737200	Active TSS	HSMM	muscle
42	chr9:71735800-71737400	Active TSS	Duodenum Smooth Muscle	Duodenum
43	chr9:71735800-71737600	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr9:71735800-71737600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr9:71735800-71737600	Active TSS	Primary mononuclear cells fromperipheralblood	Blood
46	chr9:71735800-71737600	Active TSS	Brain Inferior Temporal Lobe	brain
47	chr9:71735800-71737600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
48	chr9:71735800-71737600	Active TSS	Left Ventricle	heart
49	chr9:71735800-71737600	Active TSS	Ovary	ovary
50	chr9:71735800-71737600	Active TSS	Rectal Mucosa Donor 31	rectum

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