Variant report

Variant	rs1288075
Chromosome Location	chr6:119774300-119774301
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:119772222..119775042-chr6:119777092..119781550,4	K562	blood:
2	chr6:119773729..119776617-chr6:119785441..119787829,2	K562	blood:
3	chr6:119772222..119774379-chr6:119780050..119782058,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAN1A1-1	chr6:119773712-119776358	ENSG00000249211
2	lnc-MAN1A1-1	chr6:119773712-119776358	NONHSAT114717

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1032689	1.00[AMR][1000 genomes]
rs1288072	1.00[AMR][1000 genomes]
rs1288078	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1288079	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1288083	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1288086	1.00[AMR][1000 genomes]
rs1288088	1.00[AMR][1000 genomes]
rs17081188	1.00[AMR][1000 genomes]
rs17081296	1.00[AMR][1000 genomes]
rs17081364	1.00[AMR][1000 genomes]
rs3851207	1.00[AMR][1000 genomes]
rs7764304	1.00[AMR][1000 genomes]
rs9481944	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv1027904	chr6:119709488-120001986	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv533518	chr6:119712186-119998618	ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv3442553	chr6:119742069-120076777	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119760600-119774800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr6:119768200-119780400	Weak transcription	Aorta	Aorta
3	chr6:119768800-119775600	Weak transcription	Brain Anterior Caudate	brain
4	chr6:119770400-119774600	Weak transcription	Adipose Nuclei	Adipose
5	chr6:119770400-119774800	Weak transcription	Colon Smooth Muscle	Colon
6	chr6:119770600-119774400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:119770600-119776000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr6:119770800-119774400	Weak transcription	Dnd41	blood
9	chr6:119770800-119780000	Weak transcription	Gastric	stomach
10	chr6:119771400-119780000	Weak transcription	Duodenum Mucosa	Duodenum
11	chr6:119772000-119774400	Weak transcription	Primary B cells from cord blood	blood
12	chr6:119772200-119774400	Weak transcription	Brain Cingulate Gyrus	brain
13	chr6:119772200-119774600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:119774000-119774400	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr6:119774000-119775800	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr6:119774200-119774600	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:119774200-119774800	Enhancers	H1 Cell Line	embryonic stem cell
18	chr6:119774200-119774800	ZNF genes & repeats	Spleen	Spleen
19	chr6:119774200-119775200	Enhancers	Fetal Brain Male	brain
20	chr6:119774200-119775600	Weak transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links