Variant report

Variant	rs1978170
Chromosome Location	chr7:38757409-38757410
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10232480	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10243338	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10951570	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10951571	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11978728	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12538785	0.88[ASN][1000 genomes]
rs12701660	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13244313	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2240350	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2240355	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2286081	0.84[ASN][1000 genomes]
rs2286083	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2286085	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2286090	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2286092	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2286095	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2286097	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2286099	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2286100	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2286102	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2392595	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3207255	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3779126	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3801142	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3801144	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4720298	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4720299	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4723783	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6462858	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6462859	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6462861	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6462862	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6961672	0.86[ASN][1000 genomes]
rs7785056	0.92[ASN][1000 genomes]
rs7794371	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7806860	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7811599	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv887965	chr7:38706384-38793243	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr7:38749000-38803600	Weak transcription	Fetal Brain Male	brain
2	chr7:38754200-38758200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr7:38754200-38760600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr7:38754600-38759800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr7:38754600-38760800	Weak transcription	GM12878-XiMat	blood
6	chr7:38755000-38791200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr7:38755600-38760800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr7:38755800-38771600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr7:38756200-38763800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr7:38756400-38760600	Weak transcription	Primary T cells from cord blood	blood
11	chr7:38756400-38764600	Weak transcription	Fetal Brain Female	brain
12	chr7:38756800-38764800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr7:38757000-38784200	Weak transcription	HMEC	breast
14	chr7:38757200-38764400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr7:38757200-38764600	Weak transcription	Primary hematopoietic stem cells	blood
16	chr7:38757200-38764600	Weak transcription	Ovary	ovary
17	chr7:38757200-38835400	Weak transcription	Psoas Muscle	Psoas
18	chr7:38757400-38760600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr7:38757400-38760600	Weak transcription	Brain Hippocampus Middle	brain
20	chr7:38757400-38764600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links