Variant report

Variant	rs35316894
Chromosome Location	chr1:10203988-10203989
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:10200210..10202495-chr1:10202617..10204188,2	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1074461	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11121525	0.83[EUR][1000 genomes]
rs11806008	0.87[EUR][1000 genomes]
rs12074936	0.83[EUR][1000 genomes]
rs2273298	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2273299	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3762290	0.82[AMR][1000 genomes]
rs4543799	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs61782924	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6667049	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6671289	0.83[AMR][1000 genomes]
rs6692491	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9783053	0.81[EUR][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	esv3417409	chr1:9683992-10241703	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv527217	chr1:10093457-10257167	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv522629	chr1:10125765-10239197	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs35316894	LZIC	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10163400-10219000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:10164000-10227400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr1:10167600-10207400	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr1:10175000-10207200	Strong transcription	Primary T helper cells fromperipheralblood	blood
5	chr1:10180000-10211200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr1:10182200-10231200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr1:10182400-10229400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr1:10182800-10211400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr1:10182800-10221000	Weak transcription	Fetal Brain Male	brain
10	chr1:10182800-10231400	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr1:10184000-10235000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr1:10185400-10204400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr1:10185400-10207400	Strong transcription	Adipose Nuclei	Adipose
14	chr1:10185800-10211400	Weak transcription	A549	lung
15	chr1:10186000-10205800	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr1:10186200-10207800	Strong transcription	Fetal Intestine Large	intestine
17	chr1:10186400-10207400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr1:10186600-10204200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr1:10186600-10207200	Strong transcription	Liver	Liver
20	chr1:10186600-10207800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr1:10186600-10207800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr1:10188400-10208200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr1:10188400-10208600	Strong transcription	Fetal Stomach	stomach
24	chr1:10188600-10204200	Strong transcription	Sigmoid Colon	Sigmoid Colon
25	chr1:10191200-10225000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr1:10191200-10239600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr1:10191800-10209200	Weak transcription	Fetal Heart	heart
28	chr1:10191800-10215600	Weak transcription	Psoas Muscle	Psoas
29	chr1:10193200-10206600	Weak transcription	Pancreas	Pancrea
30	chr1:10193200-10231200	Weak transcription	Small Intestine	intestine
31	chr1:10193400-10211200	Weak transcription	Fetal Kidney	kidney
32	chr1:10194200-10232200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr1:10195400-10219400	Weak transcription	Colonic Mucosa	Colon
34	chr1:10195600-10231200	Weak transcription	HUVEC	blood vessel
35	chr1:10196800-10218000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr1:10197400-10206600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr1:10197600-10205800	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr1:10197600-10214800	Weak transcription	NHDF-Ad	bronchial
39	chr1:10197600-10225000	Weak transcription	NHEK	skin
40	chr1:10197800-10206600	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr1:10197800-10206600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr1:10197800-10206800	Weak transcription	Gastric	stomach
43	chr1:10197800-10215600	Weak transcription	Right Ventricle	heart
44	chr1:10197800-10219800	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr1:10197800-10220000	Weak transcription	Stomach Mucosa	stomach
46	chr1:10197800-10220000	Weak transcription	NH-A	brain
47	chr1:10197800-10224400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr1:10197800-10224800	Weak transcription	Esophagus	oesophagus
49	chr1:10198800-10204200	Strong transcription	Fetal Muscle Trunk	muscle
50	chr1:10198800-10205600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links