Variant report

Variant	rs17560103
Chromosome Location	chr5:154063414-154063415
allele	A/T
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	GATA3	chr5:154063398-154064100	MCF-7	breast:	n/a	n/a
2	MXI1	chr5:154061415-154063637	SK-N-SH	brain:	n/a	chr5:154062180-154062189
3	SMARCC1	chr5:154062046-154063562	Hela-S3	cervix:	n/a	chr5:154062544-154062553
4	FOS	chr5:154062048-154063483	MCF10A-Er-Src	breast:	n/a	chr5:154062543-154062553 chr5:154062542-154062554 chr5:154062545-154062552 chr5:154062544-154062552 chr5:154062542-154062553 chr5:154062544-154062552
5	CTCF	chr5:154061710-154063446	SK-N-SH	brain:	n/a	chr5:154062319-154062332 chr5:154062069-154062082
6	POLR2A	chr5:154062050-154063588	MCF10A-Er-Src	breast:	n/a	n/a
7	JUN	chr5:154061777-154063927	K562	blood:	n/a	chr5:154062543-154062553 chr5:154062542-154062554 chr5:154062545-154062552 chr5:154062544-154062552 chr5:154062544-154062552
8	TCF12	chr5:154061739-154063424	A549	lung:	n/a	n/a
9	POLR2A	chr5:154062940-154063427	SK-N-MC	brain:	n/a	n/a
10	USF2	chr5:154063175-154063415	Hela-S3	cervix:	n/a	chr5:154063260-154063271
11	POLR2A	chr5:154063154-154063436	HepG2	liver:	n/a	n/a
12	STAT3	chr5:154063318-154063518	MCF10A-Er-Src	breast:	n/a	chr5:154063499-154063506
13	FOS	chr5:154062044-154063837	MCF10A-Er-Src	breast:	n/a	chr5:154062543-154062553 chr5:154062542-154062554 chr5:154062545-154062552 chr5:154062544-154062552 chr5:154062542-154062553 chr5:154062544-154062552
14	MXI1	chr5:154061922-154063672	IMR90	lung:	n/a	chr5:154062180-154062189
15	MAZ	chr5:154061942-154063501	IMR90	lung:	n/a	chr5:154062543-154062552 chr5:154062180-154062189 chr5:154062180-154062191
16	MAX	chr5:154061944-154063457	HCT-116	colon:	n/a	chr5:154062543-154062552 chr5:154062180-154062189 chr5:154062180-154062191
17	POLR2A	chr5:154063160-154063783	PANC-1	pancreas:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr5:154059219..154066449-chr5:154131053..154139153,28	MCF-7	breast:
2	chr5:154032924..154035953-chr5:154060890..154064401,4	K562	blood:
3	chr5:154061087..154064928-chr5:154133720..154137511,10	MCF-7	breast:
4	chr5:154062083..154065077-chr5:154078214..154080372,2	K562	blood:
5	chr5:154053688..154055424-chr5:154062643..154064722,2	K562	blood:
6	chr5:154061692..154063624-chr5:154081496..154083811,3	MCF-7	breast:
7	chr5:154057419..154059228-chr5:154060984..154063481,2	MCF-7	breast:
8	chr5:154062466..154064358-chr5:154453743..154456113,2	K562	blood:
9	chr5:154062284..154064360-chr5:154130861..154133550,2	MCF-7	breast:
10	chr5:154061423..154063859-chr5:154072276..154076586,3	K562	blood:
11	chr5:154059571..154067369-chr5:154132796..154138140,13	K562	blood:
12	chr5:154061441..154064069-chr5:154090774..154094018,3	MCF-7	breast:
13	chr5:154061792..154064615-chr5:154236472..154239583,3	MCF-7	breast:
14	chr5:154062816..154065132-chr5:154065984..154069776,3	MCF-7	breast:
15	chr5:154060599..154064575-chr5:154133211..154138140,11	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LARP1-2	chr5:154062216-154065204	NONHSAT104706

Variant related genes	Relation type
MIR1303	TF binding region
ENSG00000263478	Chromatin interaction
ENSG00000170271	Chromatin interaction
ENSG00000155508	Chromatin interaction
ENSG00000155506	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs17116304	1.00[ASN][1000 genomes]
rs17641488	0.85[CEU][hapmap]
rs6877721	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv462491	chr5:154045280-154066205	Flanking Active TSS Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv600090	chr5:154045280-154066205	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:154060800-154070000	Weak transcription	Gastric	stomach
2	chr5:154061600-154063600	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr5:154061600-154063800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:154062000-154063600	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr5:154062200-154063600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:154062600-154063600	Flanking Active TSS	Liver	Liver
7	chr5:154062600-154063600	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
8	chr5:154062600-154063600	Flanking Active TSS	K562	blood
9	chr5:154062600-154063600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
10	chr5:154062600-154063800	Flanking Active TSS	Adipose Nuclei	Adipose
11	chr5:154062800-154063600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
12	chr5:154062800-154063600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr5:154062800-154063600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
14	chr5:154062800-154063600	Flanking Active TSS	Colon Smooth Muscle	Colon
15	chr5:154062800-154063600	Flanking Active TSS	Duodenum Mucosa	Duodenum
16	chr5:154062800-154064600	Enhancers	Esophagus	oesophagus
17	chr5:154063000-154063600	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
18	chr5:154063000-154063600	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr5:154063000-154063600	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr5:154063000-154063600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr5:154063000-154063600	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr5:154063000-154063600	Active TSS	Colonic Mucosa	Colon
23	chr5:154063000-154063600	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
24	chr5:154063000-154063800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr5:154063000-154063800	Enhancers	Fetal Intestine Large	intestine
26	chr5:154063000-154064000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
27	chr5:154063000-154065600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr5:154063000-154069600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr5:154063200-154063600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr5:154063200-154063600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr5:154063200-154063600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr5:154063200-154063600	Enhancers	Fetal Lung	lung
33	chr5:154063200-154063600	Enhancers	Right Ventricle	heart
34	chr5:154063200-154063600	Enhancers	Stomach Smooth Muscle	stomach
35	chr5:154063200-154063600	Enhancers	NH-A	brain
36	chr5:154063200-154063800	Enhancers	HMEC	breast
37	chr5:154063200-154064000	Weak transcription	Left Ventricle	heart
38	chr5:154063200-154064200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr5:154063200-154064200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr5:154063200-154065000	Weak transcription	Fetal Intestine Small	intestine
41	chr5:154063200-154065200	Enhancers	Pancreas	Pancrea
42	chr5:154063400-154063600	Enhancers	HUES64 Cell Line	embryonic stem cell
43	chr5:154063400-154063600	Active TSS	Duodenum Smooth Muscle	Duodenum
44	chr5:154063400-154063600	Enhancers	Rectal Mucosa Donor 31	rectum
45	chr5:154063400-154063600	Enhancers	Sigmoid Colon	Sigmoid Colon
46	chr5:154063400-154063600	Enhancers	A549	lung
47	chr5:154063400-154063600	Enhancers	HepG2	liver
48	chr5:154063400-154063800	Active TSS	iPS-20b Cell Line	embryonic stem cell
49	chr5:154063400-154063800	Enhancers	Fetal Heart	heart
50	chr5:154063400-154063800	Enhancers	Rectal Smooth Muscle	rectum

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