Variant report

Variant	rs2760105
Chromosome Location	chr13:80109867-80109868
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 130 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:128)

rs_ID	r²[population]
rs1208049	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1212082	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12877507	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs1324868	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs1335368	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1335370	0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1408049	0.88[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1410336	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs1414155	0.93[ASN][1000 genomes]
rs1414156	0.93[ASN][1000 genomes]
rs1475797	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1577416	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1577418	0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17071512	1.00[YRI][hapmap]
rs17071545	1.00[YRI][hapmap]
rs1748761	0.80[CHB][hapmap];0.88[JPT][hapmap]
rs1853830	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs2025913	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs2057573	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs2065743	0.95[ASN][1000 genomes]
rs2181433	0.84[ASN][1000 genomes]
rs2182009	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs2182010	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs2182873	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs2265377	0.80[CHB][hapmap];0.93[JPT][hapmap]
rs2265378	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs2274555	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs2476172	0.85[ASN][1000 genomes]
rs2476173	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2484343	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2484344	0.86[ASN][1000 genomes]
rs2760101	0.94[ASN][1000 genomes]
rs2760102	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2760103	0.94[ASN][1000 genomes]
rs2760106	0.88[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2763809	0.80[CHB][hapmap];0.88[JPT][hapmap]
rs2763810	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs2783119	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2783120	0.93[ASN][1000 genomes]
rs2783121	0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2783122	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2783125	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2783126	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2876740	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs314688	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs3742117	0.87[CHB][hapmap];0.81[JPT][hapmap]
rs3742118	0.80[CHB][hapmap];0.82[JPT][hapmap]
rs3742119	0.92[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs3742122	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs3752994	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs4145207	0.90[ASN][1000 genomes]
rs4146473	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs4476060	0.81[ASN][1000 genomes]
rs4885633	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4885634	0.82[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4885636	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs643778	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs6563100	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs6563104	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs6563110	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6563113	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6563115	0.93[ASN][1000 genomes]
rs6563116	0.99[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs700396	0.92[ASN][1000 genomes]
rs7319252	0.80[CHB][hapmap];0.82[JPT][hapmap]
rs7319320	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7321953	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7322673	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs73235963	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7325095	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7327386	0.80[CHB][hapmap];0.82[JPT][hapmap]
rs7327603	0.82[JPT][hapmap]
rs7328494	0.84[CHB][hapmap];0.93[JPT][hapmap]
rs7329331	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7331872	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7332367	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7332913	0.82[JPT][hapmap]
rs7336581	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7338530	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7339303	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7981067	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7982263	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7987193	0.80[CHB][hapmap];0.88[JPT][hapmap]
rs7987769	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7988601	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7990344	0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7996493	0.88[ASN][1000 genomes]
rs7996652	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7998837	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs8001281	0.80[CHB][hapmap];0.88[JPT][hapmap]
rs8002042	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs912639	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9318623	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs9318625	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9318626	0.88[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs9318627	0.84[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs9318634	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9318640	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs9318641	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs9318644	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9530899	0.84[CHB][hapmap];0.80[JPT][hapmap]
rs9530901	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9530913	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9530914	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9530922	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9530925	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9545076	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9545083	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9545085	0.80[CHB][hapmap];0.82[JPT][hapmap]
rs9545086	0.84[CEU][hapmap];0.82[JPT][hapmap]
rs9545087	0.85[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs9545097	0.85[CEU][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap]
rs9545101	0.81[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs9545142	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9565489	0.82[JPT][hapmap]
rs9565497	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9565510	0.88[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9574409	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9574413	1.00[YRI][hapmap]
rs9574416	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9574422	0.85[CEU][hapmap];0.80[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap]
rs9574429	0.81[ASN][1000 genomes]
rs9574434	0.88[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9593396	0.88[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap]
rs9593399	0.81[ASN][1000 genomes]
rs9601240	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9601242	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs987284	0.82[CHB][hapmap];1.00[JPT][hapmap];0.93[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	nsv523979	chr13:79979679-80120263	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv916983	chr13:80065879-80249702	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2760105	RBM26	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:80066800-80122800	Weak transcription	Esophagus	oesophagus
2	chr13:80083000-80120000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr13:80083000-80122800	Weak transcription	Stomach Mucosa	stomach
4	chr13:80087400-80134000	Weak transcription	Aorta	Aorta
5	chr13:80087400-80134600	Weak transcription	Pancreas	Pancrea
6	chr13:80089400-80118400	Weak transcription	Small Intestine	intestine
7	chr13:80090600-80112000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr13:80093000-80110200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr13:80093400-80112800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr13:80097000-80110400	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr13:80097000-80112400	Weak transcription	Thymus	Thymus
12	chr13:80097200-80112400	Weak transcription	Rectal Smooth Muscle	rectum
13	chr13:80097200-80122800	Weak transcription	Fetal Lung	lung
14	chr13:80097400-80121800	Weak transcription	Lung	lung
15	chr13:80097800-80110800	Weak transcription	Fetal Intestine Small	intestine
16	chr13:80098000-80112600	Weak transcription	Stomach Smooth Muscle	stomach
17	chr13:80098200-80111000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr13:80098400-80114200	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr13:80098400-80123200	Weak transcription	Fetal Kidney	kidney
20	chr13:80098600-80135000	Weak transcription	Placenta	Placenta
21	chr13:80099400-80112000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr13:80099400-80115600	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr13:80099400-80133200	Weak transcription	Psoas Muscle	Psoas
24	chr13:80099600-80112000	Weak transcription	Adipose Nuclei	Adipose
25	chr13:80099800-80113600	Weak transcription	GM12878-XiMat	blood
26	chr13:80100400-80121600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr13:80100600-80136400	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr13:80100800-80133200	Weak transcription	Hela-S3	cervix
29	chr13:80101000-80123400	Weak transcription	HMEC	breast
30	chr13:80101800-80110800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr13:80101800-80133200	Weak transcription	Primary T cells from cord blood	blood
32	chr13:80102200-80133600	Weak transcription	Gastric	stomach
33	chr13:80102400-80111800	Weak transcription	Left Ventricle	heart
34	chr13:80102400-80114200	Weak transcription	Fetal Muscle Trunk	muscle
35	chr13:80102400-80114400	Weak transcription	Right Ventricle	heart
36	chr13:80102400-80115400	Weak transcription	Fetal Muscle Leg	muscle
37	chr13:80103400-80111000	Weak transcription	Fetal Stomach	stomach
38	chr13:80104400-80112200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr13:80104800-80133600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr13:80105800-80115800	Weak transcription	Brain Anterior Caudate	brain
41	chr13:80106000-80112000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr13:80106200-80111000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr13:80106200-80111200	Weak transcription	Fetal Thymus	thymus
44	chr13:80106200-80111800	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr13:80106600-80113800	Strong transcription	Dnd41	blood
46	chr13:80107800-80110800	Enhancers	HUES48 Cell Line	embryonic stem cell
47	chr13:80107800-80111400	Enhancers	HUES64 Cell Line	embryonic stem cell
48	chr13:80108000-80110000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr13:80108000-80110000	Enhancers	Brain Inferior Temporal Lobe	brain
50	chr13:80108000-80110600	Enhancers	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links