Variant report

Variant	rs61744589
Chromosome Location	chr7:69062826-69062827
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	E2F6	chr7:69062199-69063044	A549	lung:	n/a	chr7:69062900-69062909 chr7:69062983-69062998
2	MAX	chr7:69061894-69064031	NB4	blood:	n/a	chr7:69063994-69064004 chr7:69063760-69063770 chr7:69063176-69063186 chr7:69063819-69063829
3	ZNF143	chr7:69062679-69063370	GM12878	blood:	n/a	n/a
4	TAF1	chr7:69062767-69063015	SK-N-SH	brain:	n/a	n/a
5	MAX	chr7:69062275-69062875	MCF-7	breast:	n/a	n/a
6	MAZ	chr7:69062254-69063503	GM12878	blood:	n/a	chr7:69063176-69063186
7	CTBP2	chr7:69062218-69062982	H1-hESC	embryonic stem cell:	n/a	n/a
8	ZNF263	chr7:69061871-69062963	HEK293-T-REx	kidney:	n/a	n/a
9	MAZ	chr7:69062477-69063410	HepG2	liver:	n/a	chr7:69063176-69063186
10	EP300	chr7:69062204-69064153	SK-N-SH	brain:	n/a	chr7:69062662-69062678
11	POLR2A	chr7:69062378-69063216	A549	lung:	n/a	n/a
12	RAD21	chr7:69062258-69062957	SK-N-SH_RA	brain:	n/a	n/a
13	MXI1	chr7:69060600-69067258	SK-N-SH	brain:	n/a	n/a
14	POLR2A	chr7:69062271-69063050	HL-60	blood:	n/a	n/a
15	E2F6	chr7:69062259-69063011	H1-hESC	embryonic stem cell:	n/a	chr7:69062900-69062909 chr7:69062983-69062998
16	POLR2A	chr7:69062763-69063699	A549	lung:	n/a	n/a
17	MYC	chr7:69062086-69063958	NB4	blood:	n/a	chr7:69063760-69063770 chr7:69063176-69063186 chr7:69063819-69063829
18	POLR2A	chr7:69061928-69063201	SK-N-MC	brain:	n/a	n/a
19	BACH1	chr7:69062461-69063013	H1-hESC	embryonic stem cell:	n/a	n/a
20	POLR2A	chr7:69062362-69063028	Gliobla	brain:	n/a	n/a
21	POLR2A	chr7:69062806-69064094	H1-neurons	neurons:	n/a	n/a
22	MAX	chr7:69062167-69064206	A549	lung:	n/a	chr7:69064068-69064078 chr7:69063994-69064004 chr7:69063760-69063770 chr7:69063176-69063186 chr7:69063819-69063829
23	POLR2A	chr7:69062367-69063610	HEK293	kidney:	n/a	n/a
24	CHD2	chr7:69062787-69062910	GM12878	blood:	n/a	n/a
25	SIN3A	chr7:69062462-69063395	H1-hESC	embryonic stem cell:	n/a	chr7:69063128-69063141
26	MAX	chr7:69062356-69062844	H1-hESC	embryonic stem cell:	n/a	n/a
27	NRF1	chr7:69062665-69064204	SK-N-SH	brain:	n/a	chr7:69063106-69063117 chr7:69063178-69063187 chr7:69064167-69064176 chr7:69063443-69063452
28	MAX	chr7:69062347-69063690	HepG2	liver:	n/a	chr7:69063176-69063186
29	MAX	chr7:69062310-69062865	H1-hESC	embryonic stem cell:	n/a	n/a
30	E2F6	chr7:69062354-69062832	H1-hESC	embryonic stem cell:	n/a	n/a
31	MAX	chr7:69062018-69063720	SK-N-SH	brain:	n/a	chr7:69063176-69063186
32	POLR2A	chr7:69061966-69063692	NB4	blood:	n/a	n/a
33	MAZ	chr7:69062205-69064133	IMR90	lung:	n/a	chr7:69064068-69064078 chr7:69063994-69064004 chr7:69063760-69063770 chr7:69063176-69063186 chr7:69063819-69063829
34	POLR2A	chr7:69062226-69063895	Raji	blood:	n/a	n/a
35	ELF1	chr7:69062243-69064207	GM12878	blood:	n/a	chr7:69063459-69063471 chr7:69063094-69063106
36	RAD21	chr7:69061852-69063005	SK-N-SH_RA	brain:	n/a	n/a
37	MAX	chr7:69062170-69063386	SK-N-SH	brain:	n/a	chr7:69063176-69063186
38	MAX	chr7:69062292-69063476	A549	lung:	n/a	chr7:69063176-69063186

No.	Distal block	Cell Line	Cell type
1	chr10:104261951..104262527-chr7:69062342..69063007,2	NB4	blood:
2	chr17:73150080..73150778-chr7:69062421..69063092,2	NB4	blood:
3	chr1:198906160..198906960-chr7:69062272..69062955,2	NB4	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CALN1-1	chr7:69062220-69063004	XLOC_006493
2	lnc-AUTS2-1	chr7:69061156-69063004	XLOC_006142
3	lnc-CALN1-1	chr7:69062220-69063004	XLOC_006493

Variant related genes	Relation type
AUTS2	TF binding region
ENSG00000234215	TF binding region
ENSG00000138107	Chromatin interaction
ENSG00000229989	Chromatin interaction
ENSG00000189159	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10229578	0.90[AMR][1000 genomes]
rs10233869	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10236103	0.93[ASN][1000 genomes]
rs10238307	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10241446	0.93[ASN][1000 genomes]
rs10245493	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10248237	0.90[AMR][1000 genomes]
rs10255613	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10256309	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10256311	0.98[ASN][1000 genomes]
rs10256512	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10256943	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10257587	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10261380	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10261510	0.89[ASN][1000 genomes]
rs10268221	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10268457	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10276664	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10280018	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10281575	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10281579	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11762049	0.90[AMR][1000 genomes]
rs11764277	0.83[ASN][1000 genomes]
rs11773581	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12334231	0.88[ASN][1000 genomes]
rs12334234	0.93[ASN][1000 genomes]
rs17140693	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17140755	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17140759	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17140783	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17140817	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2068718	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs28493290	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs28524600	0.98[ASN][1000 genomes]
rs28577243	0.83[ASN][1000 genomes]
rs3735260	0.98[ASN][1000 genomes]
rs4305786	0.83[ASN][1000 genomes]
rs55654955	0.83[ASN][1000 genomes]
rs55693719	0.98[ASN][1000 genomes]
rs55847506	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55880824	0.83[ASN][1000 genomes]
rs55901635	0.89[ASN][1000 genomes]
rs56800568	0.93[ASN][1000 genomes]
rs59342262	0.89[ASN][1000 genomes]
rs59517352	0.89[ASN][1000 genomes]
rs61424317	0.83[ASN][1000 genomes]
rs61692535	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62454937	0.98[ASN][1000 genomes]
rs62454938	0.98[ASN][1000 genomes]
rs6950638	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6951770	0.93[ASN][1000 genomes]
rs6962237	0.84[AMR][1000 genomes]
rs6977472	0.93[ASN][1000 genomes]
rs717266	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73155227	0.98[ASN][1000 genomes]
rs73164795	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73167506	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73170852	0.90[AMR][1000 genomes]
rs73170857	0.90[AMR][1000 genomes]
rs73170864	0.90[AMR][1000 genomes]
rs7357113	0.98[ASN][1000 genomes]
rs7777269	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7787342	0.98[ASN][1000 genomes]
rs7787695	0.89[ASN][1000 genomes]
rs7810982	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023885	chr7:68894896-69158290	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv538915	chr7:68894896-69158290	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv916011	chr7:68942155-69330800	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv428169	chr7:69021482-69196743	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv5783	chr7:69048608-69066760	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	esv3340834	chr7:69061816-69066664	Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	esv3330381	chr7:69062041-69064889	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:69061600-69065800	Active TSS	Brain Angular Gyrus	brain
2	chr7:69061800-69063800	Active TSS	Primary T cells from cord blood	blood
3	chr7:69061800-69065200	Active TSS	Brain Hippocampus Middle	brain
4	chr7:69061800-69065200	Active TSS	Fetal Lung	lung
5	chr7:69061800-69065400	Active TSS	Aorta	Aorta
6	chr7:69061800-69065600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
7	chr7:69061800-69065600	Active TSS	Duodenum Smooth Muscle	Duodenum
8	chr7:69061800-69065800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr7:69061800-69066000	Active TSS	Fetal Kidney	kidney
10	chr7:69061800-69066000	Active TSS	Pancreatic Islets	Pancreatic Islet
11	chr7:69062000-69063000	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
12	chr7:69062000-69063000	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
13	chr7:69062000-69063000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr7:69062000-69063000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr7:69062000-69063000	Flanking Bivalent TSS/Enh	Fetal Thymus	thymus
16	chr7:69062000-69063600	Active TSS	Rectal Mucosa Donor 29	rectum
17	chr7:69062000-69063800	Active TSS	Rectal Mucosa Donor 31	rectum
18	chr7:69062000-69064400	Active TSS	Fetal Brain Female	brain
19	chr7:69062000-69064800	Active TSS	Osteobl	bone
20	chr7:69062000-69065000	Active TSS	Skeletal Muscle Female	skeletal muscle
21	chr7:69062000-69065400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr7:69062000-69065400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr7:69062000-69065400	Active TSS	Fetal Intestine Large	intestine
24	chr7:69062000-69065400	Active TSS	NH-A	brain
25	chr7:69062000-69065600	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr7:69062000-69065600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr7:69062000-69065600	Active TSS	Brain Substantia Nigra	brain
28	chr7:69062000-69065600	Active TSS	Fetal Intestine Small	intestine
29	chr7:69062000-69066000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
30	chr7:69062000-69066000	Active TSS	Ovary	ovary
31	chr7:69062000-69066200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr7:69062000-69066200	Active TSS	Brain Inferior Temporal Lobe	brain
33	chr7:69062000-69066400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr7:69062000-69066400	Active TSS	Rectal Smooth Muscle	rectum
35	chr7:69062000-69066400	Active TSS	NHDF-Ad	bronchial
36	chr7:69062200-69063000	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood
37	chr7:69062200-69063000	Flanking Active TSS	Primary B cells from cord blood	blood
38	chr7:69062200-69063000	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
39	chr7:69062200-69063000	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
40	chr7:69062200-69063000	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
41	chr7:69062200-69063600	Active TSS	Primary T helper naive cells fromperipheralblood	blood
42	chr7:69062200-69063800	Active TSS	Liver	Liver
43	chr7:69062200-69064000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
44	chr7:69062200-69064400	Active TSS	Lung	lung
45	chr7:69062200-69064800	Active TSS	Gastric	stomach
46	chr7:69062200-69064800	Active TSS	Pancreas	Pancrea
47	chr7:69062200-69065000	Active TSS	Right Ventricle	heart
48	chr7:69062200-69065000	Active TSS	NHLF	lung
49	chr7:69062200-69065200	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr7:69062200-69065200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell

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