Variant report

Variant	rs1924374
Chromosome Location	chr13:50931391-50931392
allele	A/G
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:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr13:50697643..50701953-chr13:50927459..50931609,5	MCF-7	breast:
2	chr13:50921012..50924496-chr13:50928221..50931667,4	MCF-7	breast:
3	chr13:50931295..50934143-chr13:50939870..50941977,3	MCF-7	breast:
4	chr13:50931287..50933893-chr13:50934421..50935929,2	MCF-7	breast:
5	chr13:50929110..50931942-chr13:50932169..50935113,3	MCF-7	breast:
6	chr13:50929441..50932225-chr13:50939480..50941358,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DLEU7-10	chr13:50931233-50931777	NONHSAT033837

No data

Variant related genes	Relation type
ENSG00000231607	Chromatin interaction
ENSG00000223676	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1149863	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1149864	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.98[ASN][1000 genomes]
rs1149869	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1262903	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1269265	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs1269273	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1269275	1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.85[TSI][hapmap];0.83[YRI][hapmap];0.97[ASN][1000 genomes]
rs17074146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2240810	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2532968	0.93[ASN][1000 genomes]
rs59065901	0.82[AFR][1000 genomes]
rs806305	0.86[ASN][1000 genomes]
rs806309	0.87[ASN][1000 genomes]
rs806354	0.81[ASN][1000 genomes]
rs806356	0.82[ASN][1000 genomes]
rs806359	0.81[ASN][1000 genomes]
rs811714	0.86[ASN][1000 genomes]
rs9535442	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9535444	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9562961	0.85[CHB][hapmap];0.83[CHD][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs9568394	0.90[CHB][hapmap];0.98[CHD][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs9568395	0.90[CHB][hapmap];0.86[ASN][1000 genomes]
rs9568396	0.90[CHB][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035151	chr13:50513535-51167850	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1254 gene(s)	inside rSNPs	diseases
2	esv2753964	chr13:50545399-51421199	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Strong transcription 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 miRNA	1256 gene(s)	inside rSNPs	diseases
3	esv2753492	chr13:50550081-51461720	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
4	esv2752608	chr13:50550099-51054499	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1249 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50926600-50933000	Enhancers	Liver	Liver
2	chr13:50926600-50934800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr13:50927600-50931400	Weak transcription	Left Ventricle	heart
4	chr13:50927600-50931400	Weak transcription	Psoas Muscle	Psoas
5	chr13:50927600-50931400	Weak transcription	HepG2	liver
6	chr13:50928400-50931400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr13:50928400-50931600	Weak transcription	Aorta	Aorta
8	chr13:50928400-50932400	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr13:50928600-50931400	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr13:50928600-50931400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr13:50928600-50931400	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr13:50928600-50931400	Weak transcription	HSMM	muscle
13	chr13:50928600-50932400	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr13:50928800-50931600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr13:50929000-50931600	Weak transcription	HSMMtube	muscle
16	chr13:50929200-50934200	Weak transcription	Lung	lung
17	chr13:50929200-50934400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr13:50929400-50931400	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr13:50929400-50932400	Weak transcription	Thymus	Thymus
20	chr13:50929600-50932400	Weak transcription	Dnd41	blood
21	chr13:50929600-50932600	Weak transcription	Primary B cells from cord blood	blood
22	chr13:50929800-50933800	Weak transcription	Primary T cells from cord blood	blood
23	chr13:50930000-50932800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr13:50930000-50935800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr13:50930200-50932400	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr13:50930200-50933600	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr13:50930200-50939200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr13:50930200-50939600	Weak transcription	Duodenum Mucosa	Duodenum
29	chr13:50930400-50931400	Weak transcription	Spleen	Spleen
30	chr13:50930400-50932200	Weak transcription	Primary B cells from peripheral blood	blood
31	chr13:50930400-50932400	Weak transcription	Primary T cells fromperipheralblood	blood
32	chr13:50930400-50932600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr13:50930400-50932600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr13:50930600-50932400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr13:50930800-50931400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr13:50930800-50931800	Enhancers	Pancreas	Pancrea
37	chr13:50930800-50933800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr13:50930800-50934000	Enhancers	Cortex derived primary cultured neurospheres	brain
39	chr13:50930800-50935000	Enhancers	Fetal Thymus	thymus
40	chr13:50931000-50932800	Enhancers	Placenta Amnion	Placenta Amnion
41	chr13:50931000-50932800	Enhancers	NHDF-Ad	bronchial
42	chr13:50931000-50933000	Enhancers	Fetal Muscle Leg	muscle
43	chr13:50931000-50933200	Enhancers	Fetal Heart	heart
44	chr13:50931000-50933400	Enhancers	Fetal Lung	lung
45	chr13:50931200-50931400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr13:50931200-50931400	Enhancers	Brain Substantia Nigra	brain
47	chr13:50931200-50931400	Enhancers	Stomach Smooth Muscle	stomach
48	chr13:50931200-50931600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr13:50931200-50931800	Enhancers	Brain Anterior Caudate	brain
50	chr13:50931200-50931800	Enhancers	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links