Variant report

Variant	rs2277083
Chromosome Location	chr6:133827354-133827355
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:133825578..133828475-chr6:133830630..133833152,2	K562	blood:
2	chr6:133825151..133828230-chr6:133834384..133837130,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC2A12-2	chr6:133827217-133827408	ENSG00000227954.1
2	lnc-SLC2A12-2	chr6:133827217-133827408	ENSG00000227954.2
3	lnc-SLC2A12-2	chr6:133827217-133827408	NR_109982

Variant related genes	Relation type
ENSG00000227954	Chromatin interaction
ENSG00000238059	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10872407	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs212765	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs212766	0.83[CEU][hapmap]
rs212771	0.89[EUR][1000 genomes]
rs212773	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs212774	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs212775	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs212776	0.88[CEU][hapmap];0.81[CHB][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs212777	0.88[CEU][hapmap];0.81[CHB][hapmap];0.89[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3822939	1.00[CEU][hapmap];0.81[CHB][hapmap];0.96[CHD][hapmap];0.91[GIH][hapmap];0.89[JPT][hapmap];0.82[TSI][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs478907	0.81[CHB][hapmap];0.96[CHD][hapmap];0.82[GIH][hapmap];0.89[JPT][hapmap];1.00[ASN][1000 genomes]
rs561826	1.00[CEU][hapmap];0.81[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs598286	0.90[EUR][1000 genomes]
rs598699	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs667890	0.84[EUR][1000 genomes]
rs667955	0.89[EUR][1000 genomes]
rs6899927	0.82[JPT][hapmap]
rs6913726	1.00[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];0.89[JPT][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9385650	0.94[ASN][1000 genomes]
rs9483586	0.81[CHB][hapmap];1.00[CHD][hapmap];0.89[JPT][hapmap];0.95[ASN][1000 genomes]

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133818400-133828400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:133821800-133835600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr6:133823200-133869600	Weak transcription	Psoas Muscle	Psoas
4	chr6:133824200-133854200	Weak transcription	Fetal Muscle Leg	muscle
5	chr6:133824400-133837400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:133824400-133854800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr6:133824400-133861600	Weak transcription	Ovary	ovary
8	chr6:133824600-133831000	Weak transcription	A549	lung
9	chr6:133824800-133832600	Weak transcription	Hela-S3	cervix
10	chr6:133824800-133835800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr6:133825600-133857200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr6:133826400-133844800	Weak transcription	Fetal Kidney	kidney
13	chr6:133826600-133862400	Weak transcription	Fetal Lung	lung

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