Variant report

Variant	rs8002847
Chromosome Location	chr13:48506275-48506276
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SUCLA2-2	chr13:48504290-48506757	ENSG00000260388.1
2	lnc-SUCLA2-3	chr13:48506205-48506756	NONHSAT033689

Extended variants
information (count: 103 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs1104351	0.93[EUR][1000 genomes]
rs11840968	0.84[EUR][1000 genomes]
rs11841315	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12869161	0.93[EUR][1000 genomes]
rs12874522	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1326133	0.93[EUR][1000 genomes]
rs1326137	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1327656	0.93[EUR][1000 genomes]
rs1359616	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1410116	0.87[EUR][1000 genomes]
rs1886977	0.93[EUR][1000 genomes]
rs1927214	0.93[EUR][1000 genomes]
rs1998988	0.93[EUR][1000 genomes]
rs1998989	0.83[EUR][1000 genomes]
rs2025864	0.93[EUR][1000 genomes]
rs2094190	0.93[EUR][1000 genomes]
rs2094193	0.89[EUR][1000 genomes]
rs2094195	0.98[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs2104481	0.98[EUR][1000 genomes]
rs2148940	0.93[EUR][1000 genomes]
rs2182373	0.93[EUR][1000 genomes]
rs2182378	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2182785	0.83[EUR][1000 genomes]
rs2406694	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2406796	0.93[EUR][1000 genomes]
rs2406798	0.93[EUR][1000 genomes]
rs3862747	0.93[EUR][1000 genomes]
rs4941618	0.93[EUR][1000 genomes]
rs4941620	0.89[EUR][1000 genomes]
rs4941624	0.89[EUR][1000 genomes]
rs4942720	0.87[EUR][1000 genomes]
rs4942721	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4942723	0.85[EUR][1000 genomes]
rs4942724	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4942732	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4942734	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4942736	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4942740	0.93[EUR][1000 genomes]
rs4942746	0.93[EUR][1000 genomes]
rs61972210	0.84[EUR][1000 genomes]
rs61972223	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61972227	0.89[EUR][1000 genomes]
rs61973264	0.93[EUR][1000 genomes]
rs61973265	0.93[EUR][1000 genomes]
rs61973266	0.93[EUR][1000 genomes]
rs61973307	0.93[EUR][1000 genomes]
rs61973308	0.89[EUR][1000 genomes]
rs61974562	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61974563	0.93[EUR][1000 genomes]
rs61974564	0.93[EUR][1000 genomes]
rs61974579	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6561414	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6561416	0.93[EUR][1000 genomes]
rs6561421	0.93[EUR][1000 genomes]
rs6561425	0.93[EUR][1000 genomes]
rs6561426	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6561438	0.85[EUR][1000 genomes]
rs7323702	0.93[EUR][1000 genomes]
rs7323821	0.93[EUR][1000 genomes]
rs7324368	0.91[EUR][1000 genomes]
rs7325175	0.93[EUR][1000 genomes]
rs7326381	0.91[EUR][1000 genomes]
rs7326418	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7329137	0.93[EUR][1000 genomes]
rs7329266	0.93[EUR][1000 genomes]
rs7329615	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7332363	0.91[EUR][1000 genomes]
rs7332994	0.93[EUR][1000 genomes]
rs7334801	0.84[EUR][1000 genomes]
rs7335797	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7336170	0.93[EUR][1000 genomes]
rs7985469	0.93[EUR][1000 genomes]
rs7990099	0.91[EUR][1000 genomes]
rs7990541	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7991892	0.93[EUR][1000 genomes]
rs7996051	0.93[EUR][1000 genomes]
rs7996581	0.93[EUR][1000 genomes]
rs7998786	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7999270	0.83[EUR][1000 genomes]
rs8001032	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8001509	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8002482	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs840428	0.93[EUR][1000 genomes]
rs840429	0.93[EUR][1000 genomes]
rs840432	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs840435	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs840437	0.93[EUR][1000 genomes]
rs840439	0.93[EUR][1000 genomes]
rs9316350	0.93[EUR][1000 genomes]
rs9316351	0.93[EUR][1000 genomes]
rs943066	0.93[EUR][1000 genomes]
rs943067	0.93[EUR][1000 genomes]
rs9526419	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9526431	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9526441	0.87[EUR][1000 genomes]
rs9526448	0.93[EUR][1000 genomes]
rs9534884	0.91[EUR][1000 genomes]
rs9534956	0.93[EUR][1000 genomes]
rs9534959	0.81[EUR][1000 genomes]
rs9562792	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9567988	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933980	chr13:48431000-48557419	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv1803690	chr13:48470681-48508091	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8002847	MED4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48477000-48506400	Weak transcription	Psoas Muscle	Psoas
2	chr13:48492200-48510800	Weak transcription	Left Ventricle	heart
3	chr13:48495200-48506800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr13:48496600-48506600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr13:48501000-48531200	Weak transcription	Spleen	Spleen
6	chr13:48502000-48530800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr13:48502600-48507000	Weak transcription	Adipose Nuclei	Adipose
8	chr13:48502600-48513600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr13:48503600-48512400	Weak transcription	Aorta	Aorta
10	chr13:48503800-48506400	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr13:48503800-48507000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr13:48503800-48507400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr13:48503800-48513200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr13:48503800-48516800	Weak transcription	NHDF-Ad	bronchial
15	chr13:48504000-48513400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr13:48505600-48506600	Weak transcription	HepG2	liver
17	chr13:48506000-48531400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links