Variant report

Variant	rs10905234
Chromosome Location	chr10:5860282-5860283
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Variant related genes	Relation type
GDI2	TF binding region
ENSG00000134452	Chromatin interaction
ENSG00000134461	Chromatin interaction
ENSG00000108021	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10508296	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10737021	0.93[ASN][1000 genomes]
rs10752110	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10752111	0.85[ASN][1000 genomes]
rs10795541	0.82[ASN][1000 genomes]
rs10795547	0.93[ASN][1000 genomes]
rs10905137	0.80[ASN][1000 genomes]
rs10905255	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10905256	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11255228	0.87[ASN][1000 genomes]
rs1533215	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1967487	0.89[ASN][1000 genomes]
rs2380203	0.82[ASN][1000 genomes]
rs4749326	0.94[EUR][1000 genomes]
rs6602259	0.90[ASN][1000 genomes]
rs6602278	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7909733	0.88[ASN][1000 genomes]
rs7916827	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv515935	chr10:5820394-5869839	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv549896	chr10:5820394-5880066	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10905234	GDI2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5856200-5862600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:5856600-5861600	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr10:5857000-5860800	Weak transcription	Fetal Muscle Trunk	muscle
4	chr10:5857000-5862200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr10:5857000-5863600	Enhancers	Primary B cells from cord blood	blood
6	chr10:5857000-5864200	Enhancers	Primary B cells from peripheral blood	blood
7	chr10:5857000-5866800	Weak transcription	NHLF	lung
8	chr10:5857400-5860800	Weak transcription	Spleen	Spleen
9	chr10:5857400-5861000	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr10:5857400-5871400	Weak transcription	Pancreas	Pancrea
11	chr10:5858400-5861600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr10:5859600-5861000	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr10:5859800-5862400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr10:5859800-5862800	Enhancers	GM12878-XiMat	blood
15	chr10:5860000-5860400	Enhancers	HepG2	liver
16	chr10:5860000-5860400	Weak transcription	Monocytes-CD14+_RO01746	blood

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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

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