Variant report

Variant	rs10146242
Chromosome Location	chr14:68128142-68128143
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZNF384	chr14:68128035-68128400	GM12878	blood:	n/a	n/a
2	ZNF384	chr14:68128136-68128380	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:68106693..68108221-chr14:68127792..68129526,2	MCF-7	breast:
2	chr14:68123842..68128225-chr14:68139646..68143249,5	MCF-7	breast:

Variant related genes	Relation type
VTI1B	TF binding region
ENSG00000272253	TF binding region
ENSG00000100568	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10131022	1.00[EUR][1000 genomes]
rs10133699	1.00[EUR][1000 genomes]
rs10134763	1.00[EUR][1000 genomes]
rs10135963	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10136738	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10139064	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10139482	1.00[EUR][1000 genomes]
rs10142186	1.00[EUR][1000 genomes]
rs10145923	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10145933	1.00[EUR][1000 genomes]
rs10147052	1.00[EUR][1000 genomes]
rs10147145	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10150532	1.00[EUR][1000 genomes]
rs11849600	1.00[MEX][hapmap]
rs17104527	1.00[EUR][1000 genomes]
rs17104547	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17104587	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17104591	1.00[EUR][1000 genomes]
rs17104697	1.00[EUR][1000 genomes]
rs2234506	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2234512	0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2295109	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs2295110	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs28451245	1.00[EUR][1000 genomes]
rs28556682	1.00[EUR][1000 genomes]
rs28780734	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28784083	1.00[EUR][1000 genomes]
rs28817410	1.00[EUR][1000 genomes]
rs28844401	1.00[EUR][1000 genomes]
rs34057001	1.00[EUR][1000 genomes]
rs35010674	1.00[EUR][1000 genomes]
rs4272963	1.00[EUR][1000 genomes]
rs4899218	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4899220	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs4902492	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs4902510	0.94[LWK][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4902516	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs4902522	1.00[EUR][1000 genomes]
rs57023353	1.00[EUR][1000 genomes]
rs57348219	1.00[EUR][1000 genomes]
rs58112975	1.00[EUR][1000 genomes]
rs58952057	1.00[EUR][1000 genomes]
rs59945885	1.00[EUR][1000 genomes]
rs7143223	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7143483	1.00[EUR][1000 genomes]
rs7144698	1.00[EUR][1000 genomes]
rs7145385	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7149669	1.00[EUR][1000 genomes]
rs7156195	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7157699	1.00[EUR][1000 genomes]
rs7160492	1.00[MEX][hapmap]
rs7359109	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7765	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8007916	1.00[EUR][1000 genomes]
rs8009762	1.00[EUR][1000 genomes]
rs8010136	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs8015427	1.00[TSI][hapmap]
rs8015609	1.00[EUR][1000 genomes]
rs8018161	1.00[EUR][1000 genomes]
rs8018528	1.00[EUR][1000 genomes]
rs8023116	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv902068	chr14:68083133-68204876	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10146242	VTI1B	cis	lymphoblastoid	seeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:68109000-68130000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr14:68109000-68133200	Weak transcription	Stomach Mucosa	stomach
3	chr14:68111000-68135200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr14:68112000-68129400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr14:68112000-68129800	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr14:68112200-68128200	Strong transcription	Primary T cells from cord blood	blood
7	chr14:68112200-68128200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr14:68112200-68129200	Strong transcription	Primary monocytes fromperipheralblood	blood
9	chr14:68112400-68128400	Strong transcription	Liver	Liver
10	chr14:68112400-68129400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr14:68112400-68129800	Strong transcription	Primary T cells fromperipheralblood	blood
12	chr14:68112400-68130000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr14:68112400-68130000	Strong transcription	Primary T helper cells fromperipheralblood	blood
14	chr14:68112800-68128200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr14:68112800-68128200	Strong transcription	Left Ventricle	heart
16	chr14:68114600-68128600	Strong transcription	Fetal Muscle Trunk	muscle
17	chr14:68114800-68129800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr14:68115200-68128400	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr14:68115600-68129000	Strong transcription	Fetal Stomach	stomach
20	chr14:68115600-68130600	Strong transcription	Fetal Intestine Small	intestine
21	chr14:68115600-68135200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr14:68117000-68139400	Weak transcription	Psoas Muscle	Psoas
23	chr14:68118400-68129800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr14:68119200-68128600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr14:68119400-68140400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr14:68120800-68135400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr14:68121000-68128600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr14:68121000-68128600	Strong transcription	Adipose Nuclei	Adipose
29	chr14:68121200-68128200	Strong transcription	Fetal Muscle Leg	muscle
30	chr14:68121400-68129200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr14:68121400-68132600	Weak transcription	Fetal Heart	heart
32	chr14:68122000-68128600	Strong transcription	GM12878-XiMat	blood
33	chr14:68123800-68132800	Weak transcription	NHLF	lung
34	chr14:68123800-68139400	Weak transcription	Fetal Brain Male	brain
35	chr14:68124000-68132400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
36	chr14:68124000-68132600	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr14:68124000-68132600	Weak transcription	Brain Angular Gyrus	brain
38	chr14:68124000-68133200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr14:68124000-68133800	Weak transcription	Fetal Kidney	kidney
40	chr14:68124000-68136400	Weak transcription	Pancreas	Pancrea
41	chr14:68124000-68139600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr14:68124000-68140200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr14:68124000-68140200	Weak transcription	Right Ventricle	heart
44	chr14:68124200-68129600	Weak transcription	HMEC	breast
45	chr14:68124200-68132400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr14:68124200-68133400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr14:68124200-68133400	Weak transcription	Rectal Smooth Muscle	rectum
48	chr14:68124200-68139400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr14:68124400-68128200	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr14:68124400-68132600	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links