Variant report

Variant	rs12306848
Chromosome Location	chr12:105374406-105374407
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RFX5	chr12:105374278-105374423	K562	blood:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:105371850..105375601-chr12:105378341..105381533,4	K562	blood:
2	chr12:105368507..105370397-chr12:105372355..105374469,3	MCF-7	breast:
3	chr12:105372994..105375958-chr12:105380772..105382455,2	K562	blood:
4	chr12:105374222..105376739-chr12:105379905..105381631,3	MCF-7	breast:
5	chr12:105373554..105375601-chr12:105378341..105380639,2	K562	blood:

No data

Variant related genes	Relation type
KRT18P20	TF binding region
ENSG00000151131	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10160991	0.84[ASN][1000 genomes]
rs10161522	0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10507186	1.00[CEU][hapmap]
rs10507187	1.00[CEU][hapmap]
rs10507188	1.00[CEU][hapmap]
rs11112218	1.00[CEU][hapmap]
rs11112276	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112277	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112279	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112283	0.96[ASN][1000 genomes]
rs11112307	0.96[ASN][1000 genomes]
rs11112346	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs11503466	0.96[ASN][1000 genomes]
rs12299385	0.94[ASN][1000 genomes]
rs12299936	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12300005	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.96[ASN][1000 genomes]
rs12300010	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12301432	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.96[ASN][1000 genomes]
rs12301850	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.83[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12306191	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12306443	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12308952	0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12310790	0.96[ASN][1000 genomes]
rs12313077	0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12314995	0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12315975	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12315983	1.00[CEU][hapmap];0.84[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12316001	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12319632	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12320024	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12320195	0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12320880	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12321224	0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12321226	0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12321381	1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17036439	1.00[CEU][hapmap]
rs17036463	1.00[CEU][hapmap]
rs17036494	1.00[CEU][hapmap]
rs17036505	1.00[CEU][hapmap]
rs17036509	1.00[CEU][hapmap]
rs17036534	1.00[CEU][hapmap]
rs17036542	1.00[CEU][hapmap]
rs17036549	1.00[CEU][hapmap]
rs17041531	1.00[CEU][hapmap]
rs35879768	0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3812795	1.00[CEU][hapmap]
rs4077312	1.00[CEU][hapmap]
rs4267155	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4268581	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4375513	1.00[CEU][hapmap]
rs4393405	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4451800	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4553438	1.00[CEU][hapmap]
rs7131977	1.00[CEU][hapmap]
rs7299019	1.00[CEU][hapmap]
rs7964906	0.99[ASN][1000 genomes]
rs7970504	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899495	chr12:104990469-105527011	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv899498	chr12:105173598-105461620	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	diseases
3	nsv832505	chr12:105315352-105497765	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv869	chr12:105363425-105394904	Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases
5	nsv983361	chr12:105367672-105376203	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv512291	chr12:105368996-105375344	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	esv3500896	chr12:105370222-105374820	Enhancers Weak transcription	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	esv3500907	chr12:105370222-105374820	Enhancers Weak transcription	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links