Variant report

Variant	rs7331182
Chromosome Location	chr13:50097890-50097891
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SETDB2-1	chr13:50097311-50098216	NONHSAT033749

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs17381926	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs41284778	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56737298	0.85[ASN][1000 genomes]
rs59837207	0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs66771344	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67714799	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7317398	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73190705	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9562880	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9562881	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9562882	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9562884	0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9562888	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9562892	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9568205	0.88[EUR][1000 genomes]
rs9568207	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9568209	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9568210	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9568211	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9568214	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9568215	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9568216	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9568222	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9568227	0.82[ASN][1000 genomes]
rs9568231	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9568240	0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047311	chr13:49895019-50224227	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv916093	chr13:50050919-50290245	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1036135	chr13:50071310-50183103	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv541770	chr13:50071310-50183103	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv519181	chr13:50094090-50098376	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50075000-50102400	Weak transcription	NH-A	brain
2	chr13:50075000-50143800	Weak transcription	Small Intestine	intestine
3	chr13:50077600-50114000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr13:50080000-50107000	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr13:50080200-50104600	Strong transcription	Primary T helper cells fromperipheralblood	blood
6	chr13:50080600-50098000	Strong transcription	Primary B cells from cord blood	blood
7	chr13:50080600-50101000	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr13:50080600-50104600	Strong transcription	Primary T cells fromperipheralblood	blood
9	chr13:50083600-50103600	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr13:50083800-50099600	Strong transcription	Primary T cells from cord blood	blood
11	chr13:50084000-50104800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr13:50084800-50104200	Strong transcription	GM12878-XiMat	blood
13	chr13:50085000-50098200	Strong transcription	Dnd41	blood
14	chr13:50085000-50099600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr13:50085400-50104800	Strong transcription	Primary T helper cells PMA-I stimulated	--
16	chr13:50085800-50099000	Weak transcription	Hela-S3	cervix
17	chr13:50086400-50113600	Weak transcription	Brain Angular Gyrus	brain
18	chr13:50086600-50098400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr13:50086600-50101600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr13:50086600-50103200	Strong transcription	Primary neutrophils fromperipheralblood	blood
21	chr13:50086600-50106200	Strong transcription	Fetal Thymus	thymus
22	chr13:50086600-50108800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr13:50086600-50114200	Weak transcription	Fetal Brain Female	brain
24	chr13:50086800-50101600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr13:50087400-50099400	Strong transcription	Liver	Liver
26	chr13:50087400-50099400	Strong transcription	Placenta	Placenta
27	chr13:50087800-50098000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr13:50087800-50103600	Strong transcription	Rectal Mucosa Donor 29	rectum
29	chr13:50088200-50113600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr13:50088400-50151000	Weak transcription	Psoas Muscle	Psoas
31	chr13:50088600-50134200	Weak transcription	Stomach Mucosa	stomach
32	chr13:50089200-50107400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr13:50089400-50114200	Weak transcription	Colon Smooth Muscle	Colon
34	chr13:50089800-50101200	Weak transcription	NHEK	skin
35	chr13:50090000-50101200	Weak transcription	Left Ventricle	heart
36	chr13:50090000-50113600	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr13:50090000-50122800	Weak transcription	Ovary	ovary
38	chr13:50090000-50123600	Weak transcription	Esophagus	oesophagus
39	chr13:50090200-50101000	Weak transcription	Brain Anterior Caudate	brain
40	chr13:50090200-50101200	Weak transcription	Brain Substantia Nigra	brain
41	chr13:50090200-50114200	Weak transcription	Aorta	Aorta
42	chr13:50090200-50117800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr13:50090400-50106600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr13:50090400-50113400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr13:50090400-50114200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr13:50090800-50104200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr13:50091000-50104000	Weak transcription	Fetal Muscle Trunk	muscle
48	chr13:50091000-50114200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr13:50091400-50138800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr13:50091800-50107600	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links