Variant report

Variant	rs1368025
Chromosome Location	chr18:39516407-39516408
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:39508498..39511790-chr18:39514300..39517949,3	K562	blood:

Extended variants
information (count: 74 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10221315	0.94[CEU][hapmap];0.81[CHB][hapmap]
rs10775471	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11082255	0.94[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11082257	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12455038	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12455083	0.94[CEU][hapmap];0.91[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.87[MEX][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes]
rs12455780	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12456084	0.80[EUR][1000 genomes]
rs12456573	0.89[EUR][1000 genomes]
rs12456761	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12456934	0.85[EUR][1000 genomes]
rs12457354	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12457525	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12964834	0.80[EUR][1000 genomes]
rs12966303	0.85[EUR][1000 genomes]
rs13381503	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1432138	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16975431	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16975474	0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1897396	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1897397	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1941526	0.80[EUR][1000 genomes]
rs1942151	0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1942152	0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1984366	0.85[EUR][1000 genomes]
rs1984367	0.85[EUR][1000 genomes]
rs2043220	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2156015	0.93[EUR][1000 genomes]
rs2334943	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34966612	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4890221	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4890377	0.94[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4890378	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4890379	0.94[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.85[EUR][1000 genomes]
rs5004531	0.80[EUR][1000 genomes]
rs510946	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs569983	0.81[EUR][1000 genomes]
rs57794431	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs581950	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60861018	0.91[EUR][1000 genomes]
rs61107251	0.80[EUR][1000 genomes]
rs62082282	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62082880	0.80[EUR][1000 genomes]
rs627099	0.81[EUR][1000 genomes]
rs639660	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs650586	0.81[EUR][1000 genomes]
rs6507451	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs657164	1.00[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs667503	0.81[EUR][1000 genomes]
rs66960332	0.80[EUR][1000 genomes]
rs7237320	0.82[ASN][1000 genomes]
rs7237459	0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7239288	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7241193	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8089024	0.82[ASN][1000 genomes]
rs8092900	0.82[ASN][1000 genomes]
rs8093251	0.85[EUR][1000 genomes]
rs9304263	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9807279	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9807400	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9807487	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9948913	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9989595	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066869	chr18:38742896-39680723	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv543685	chr18:38742896-39680723	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv949609	chr18:39126941-40070286	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv431979	chr18:39255558-39696452	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1066029	chr18:39322920-39623625	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv543686	chr18:39322920-39623625	Strong transcription Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv909566	chr18:39327962-39688452	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
8	esv34153	chr18:39398768-39872265	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv909567	chr18:39470190-39652939	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
10	nsv2268	chr18:39487042-39531721	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
11	nsv909568	chr18:39491873-39768746	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1368025	CELF4	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:39514000-39516600	Weak transcription	Spleen	Spleen
2	chr18:39514000-39518600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr18:39514000-39518800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr18:39514800-39516600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr18:39514800-39516600	Weak transcription	Fetal Kidney	kidney
6	chr18:39515800-39517000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr18:39515800-39521200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr18:39516000-39521400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr18:39516000-39521600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr18:39516200-39517200	Enhancers	GM12878-XiMat	blood
11	chr18:39516200-39517200	Enhancers	Osteobl	bone
12	chr18:39516400-39516800	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr18:39516400-39516800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
14	chr18:39516400-39516800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr18:39516400-39517000	Enhancers	NH-A	brain
16	chr18:39516400-39517400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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