Variant report

Variant	rs12724901
Chromosome Location	chr1:179497725-179497726
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	chr1:179497716..179500017-chr1:179555604..179558025,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000227141	Chromatin interaction

Extended variants
information (count: 116 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs10157699	0.88[CEU][hapmap]
rs10798708	0.89[CEU][hapmap]
rs10913739	0.88[JPT][hapmap]
rs10913752	0.88[JPT][hapmap]
rs10913753	0.88[JPT][hapmap]
rs10913755	0.86[ASN][1000 genomes]
rs10913760	0.86[ASN][1000 genomes]
rs10913761	0.86[ASN][1000 genomes]
rs10913762	0.86[ASN][1000 genomes]
rs10913766	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs10913767	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs10913768	0.86[ASN][1000 genomes]
rs10913769	0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs10913770	0.86[ASN][1000 genomes]
rs10913771	0.86[ASN][1000 genomes]
rs10913809	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10913847	0.94[CEU][hapmap]
rs11577579	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs11578241	0.86[ASN][1000 genomes]
rs11582158	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11582255	0.86[ASN][1000 genomes]
rs11582293	0.86[ASN][1000 genomes]
rs11582754	0.86[ASN][1000 genomes]
rs11586744	0.80[ASN][1000 genomes]
rs11801919	0.91[JPT][hapmap]
rs11802624	0.86[ASN][1000 genomes]
rs11802625	0.86[ASN][1000 genomes]
rs11802637	0.86[ASN][1000 genomes]
rs11803938	0.88[JPT][hapmap]
rs11807559	0.91[JPT][hapmap]
rs11811198	0.90[JPT][hapmap]
rs12401957	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs12403885	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12403933	0.89[CEU][hapmap]
rs12408443	0.80[ASN][1000 genomes]
rs12409337	0.80[ASN][1000 genomes]
rs12722736	0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs12724320	0.91[JPT][hapmap]
rs12724496	0.86[ASN][1000 genomes]
rs12724525	0.86[JPT][hapmap]
rs12724634	0.86[ASN][1000 genomes]
rs12724778	0.88[JPT][hapmap]
rs12726506	0.88[JPT][hapmap]
rs12729067	0.86[ASN][1000 genomes]
rs12729775	0.86[ASN][1000 genomes]
rs12729788	0.84[CEU][hapmap];0.91[JPT][hapmap];0.94[YRI][hapmap]
rs12730056	0.84[CEU][hapmap];0.88[JPT][hapmap];0.93[YRI][hapmap]
rs12736279	1.00[ASN][1000 genomes]
rs12736545	1.00[ASN][1000 genomes]
rs12738262	0.81[JPT][hapmap]
rs12738929	0.86[ASN][1000 genomes]
rs12739116	0.86[ASN][1000 genomes]
rs12741425	0.84[CEU][hapmap];0.88[JPT][hapmap]
rs12743018	0.84[CEU][hapmap];0.88[JPT][hapmap]
rs12744251	0.86[ASN][1000 genomes]
rs12744949	0.91[JPT][hapmap]
rs12744976	0.88[JPT][hapmap]
rs12746578	0.90[JPT][hapmap]
rs12747626	0.91[JPT][hapmap]
rs12747675	0.89[CEU][hapmap];0.81[JPT][hapmap]
rs12749461	1.00[JPT][hapmap]
rs12750591	0.86[ASN][1000 genomes]
rs12751914	0.89[CEU][hapmap];0.81[JPT][hapmap]
rs12753162	0.91[JPT][hapmap]
rs12753310	0.89[JPT][hapmap]
rs12756624	0.84[CEU][hapmap];0.91[JPT][hapmap];0.88[YRI][hapmap]
rs12757708	0.91[JPT][hapmap]
rs12757910	0.91[JPT][hapmap]
rs12757935	0.80[ASN][1000 genomes]
rs12758415	0.80[ASN][1000 genomes]
rs12758828	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12760048	0.91[JPT][hapmap]
rs1328597	1.00[ASN][1000 genomes]
rs1328598	1.00[ASN][1000 genomes]
rs1410589	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1410594	0.81[CEU][hapmap]
rs1576224	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2209919	1.00[ASN][1000 genomes]
rs34291276	1.00[ASN][1000 genomes]
rs34463289	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35401719	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35427395	1.00[ASN][1000 genomes]
rs36057553	0.93[ASN][1000 genomes]
rs3754133	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3765548	1.00[CHB][hapmap];0.88[JPT][hapmap];0.90[ASN][1000 genomes]
rs3935240	0.90[JPT][hapmap]
rs4130266	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs4233179	0.89[JPT][hapmap]
rs4360491	0.80[ASN][1000 genomes]
rs4418554	0.80[ASN][1000 genomes]
rs4443850	0.89[CEU][hapmap]
rs4454499	0.86[ASN][1000 genomes]
rs4628468	0.89[CEU][hapmap]
rs4651028	0.86[ASN][1000 genomes]
rs4651037	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4651043	0.81[CEU][hapmap]
rs4652383	0.81[JPT][hapmap]
rs4652428	0.89[CEU][hapmap]
rs4652430	0.88[CEU][hapmap];0.81[JPT][hapmap]
rs61821011	0.86[ASN][1000 genomes]
rs61826364	1.00[ASN][1000 genomes]
rs61826365	1.00[ASN][1000 genomes]
rs6666939	0.90[JPT][hapmap]
rs7513782	0.80[ASN][1000 genomes]
rs7513973	0.80[ASN][1000 genomes]
rs7521106	0.81[JPT][hapmap]
rs7524128	0.88[JPT][hapmap]
rs7532155	0.86[ASN][1000 genomes]
rs7534216	0.89[CEU][hapmap]
rs7550638	0.84[CEU][hapmap];0.88[JPT][hapmap]
rs7551894	0.80[ASN][1000 genomes]
rs7554103	0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs7555722	0.84[CEU][hapmap];0.81[JPT][hapmap]
rs7555895	0.84[CEU][hapmap];0.90[JPT][hapmap];0.94[YRI][hapmap]
rs9662026	0.80[ASN][1000 genomes]
rs9699789	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12724901	AXDND1	cis	Thyroid	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:179486400-179499600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr1:179486600-179499600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr1:179487200-179515000	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr1:179493800-179498000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr1:179494200-179498400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr1:179496200-179498200	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr1:179497000-179499600	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr1:179497200-179498200	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr1:179497200-179498200	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr1:179497200-179498400	Enhancers	H9 Cell Line	embryonic stem cell
11	chr1:179497200-179498800	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr1:179497200-179499200	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr1:179497200-179499200	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr1:179497400-179498600	Enhancers	H1 Cell Line	embryonic stem cell
15	chr1:179497400-179498600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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