Variant report

Variant	rs35210729
Chromosome Location	chr12:9850131-9850132
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KLRF1-2	chr12:9847356-9852151	NR_036693

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10844449	0.86[AMR][1000 genomes]
rs10844476	0.86[AMR][1000 genomes]
rs11052430	0.86[AMR][1000 genomes]
rs11052431	0.86[AMR][1000 genomes]
rs11052434	0.86[AMR][1000 genomes]
rs11052718	0.89[AMR][1000 genomes]
rs12578928	0.86[AMR][1000 genomes]
rs12582616	0.82[AMR][1000 genomes]
rs12810851	0.86[AMR][1000 genomes]
rs12815393	0.93[AMR][1000 genomes]
rs12823699	0.86[AMR][1000 genomes]
rs12825507	0.86[AMR][1000 genomes]
rs12828773	0.93[AMR][1000 genomes]
rs12831453	0.86[AMR][1000 genomes]
rs2192439	0.92[AMR][1000 genomes]
rs34201389	0.92[AMR][1000 genomes]
rs61913428	0.92[AMR][1000 genomes]
rs7954062	0.93[AMR][1000 genomes]
rs7979758	0.93[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758293	chr12:9371595-9923529	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
2	esv2759878	chr12:9371595-9923529	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
3	nsv975446	chr12:9847906-9852218	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs35210729	LOC374443	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:9826600-9852400	Weak transcription	Colon Smooth Muscle	Colon
2	chr12:9826800-9854400	Weak transcription	Esophagus	oesophagus
3	chr12:9827000-9853200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr12:9827200-9851000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr12:9827200-9851600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr12:9827200-9852400	Weak transcription	Osteobl	bone
7	chr12:9838800-9854400	Weak transcription	Spleen	Spleen
8	chr12:9839000-9854400	Weak transcription	Lung	lung
9	chr12:9839400-9854600	Weak transcription	Small Intestine	intestine
10	chr12:9840600-9864600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr12:9841800-9854800	Weak transcription	Right Ventricle	heart
12	chr12:9841800-9863200	Weak transcription	HSMMtube	muscle
13	chr12:9842200-9850800	Weak transcription	Fetal Brain Male	brain
14	chr12:9842800-9852200	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr12:9844000-9852400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr12:9844200-9860600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr12:9846000-9852400	Weak transcription	NHLF	lung
18	chr12:9847600-9850400	Weak transcription	Fetal Heart	heart
19	chr12:9847600-9860000	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr12:9847800-9850400	Weak transcription	HSMM	muscle
21	chr12:9847800-9850600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr12:9848000-9850800	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr12:9848000-9851800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr12:9848200-9850600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr12:9848200-9852200	Weak transcription	Fetal Lung	lung
26	chr12:9848200-9860200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr12:9848400-9850200	Weak transcription	Fetal Stomach	stomach
28	chr12:9848400-9850800	Weak transcription	Fetal Kidney	kidney
29	chr12:9848400-9851600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr12:9848400-9852000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr12:9848400-9852400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr12:9848400-9853000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr12:9848400-9854000	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr12:9848400-9860200	Weak transcription	Duodenum Mucosa	Duodenum
35	chr12:9848600-9851000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr12:9848600-9859400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr12:9848800-9851600	Weak transcription	Fetal Intestine Large	intestine
38	chr12:9849000-9851000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr12:9849200-9851200	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
40	chr12:9849400-9850400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr12:9849400-9851000	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr12:9849400-9851200	Weak transcription	Primary B cells from cord blood	blood
43	chr12:9849400-9852000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr12:9849400-9853000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr12:9849400-9853200	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr12:9849400-9854000	Weak transcription	Thymus	Thymus
47	chr12:9849600-9850200	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
48	chr12:9849600-9851800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr12:9849600-9852200	Weak transcription	Primary B cells from peripheral blood	blood
50	chr12:9849800-9853200	Weak transcription	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links