Variant report

Variant	rs12644144
Chromosome Location	chr4:96562035-96562036
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10006511	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10013217	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10013299	0.81[ASN][1000 genomes]
rs10015906	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10016846	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10016927	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10022798	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10025352	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12506817	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12510917	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12646265	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13106700	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13129220	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs13131332	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1436590	0.84[ASN][1000 genomes]
rs1436591	0.86[ASN][1000 genomes]
rs1436594	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1865852	0.84[ASN][1000 genomes]
rs28432792	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28480454	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28522563	0.84[ASN][1000 genomes]
rs2865708	0.84[ASN][1000 genomes]
rs34735998	0.84[ASN][1000 genomes]
rs34888770	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35128711	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs35163600	0.84[ASN][1000 genomes]
rs35988502	0.84[ASN][1000 genomes]
rs4699269	0.84[ASN][1000 genomes]
rs5011717	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57688009	0.84[ASN][1000 genomes]
rs66961649	0.84[ASN][1000 genomes]
rs6833840	0.81[JPT][hapmap]
rs750915	0.83[ASN][1000 genomes]
rs7659302	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7674945	0.84[ASN][1000 genomes]
rs7680957	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7681580	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7682279	0.84[ASN][1000 genomes]
rs7697432	0.84[ASN][1000 genomes]
rs7697645	0.80[ASN][1000 genomes]
rs9884214	0.84[ASN][1000 genomes]
rs9990668	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9990964	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9992379	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9994273	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830012	chr4:96547783-96746163	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv1844506	chr4:96554889-96704333	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1007133	chr4:96556072-96614235	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96559800-96562200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr4:96559800-96562400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:96560000-96562600	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr4:96560200-96562200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
5	chr4:96560200-96562600	Enhancers	Brain Anterior Caudate	brain
6	chr4:96560200-96562600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr4:96560400-96562200	Enhancers	Brain Angular Gyrus	brain
8	chr4:96560800-96562200	Enhancers	Brain Inferior Temporal Lobe	brain
9	chr4:96561000-96562200	Flanking Active TSS	Brain Cingulate Gyrus	brain
10	chr4:96561000-96562400	Enhancers	Brain Substantia Nigra	brain
11	chr4:96561200-96562400	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr4:96561400-96562600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr4:96561600-96562200	Flanking Active TSS	Brain Hippocampus Middle	brain
14	chr4:96561600-96562400	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr4:96561600-96562400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr4:96561600-96562400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr4:96561600-96562400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr4:96561600-96562400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr4:96561600-96564600	Enhancers	Dnd41	blood
20	chr4:96561800-96562200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr4:96561800-96562200	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr4:96561800-96562200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr4:96561800-96562200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr4:96561800-96562400	Enhancers	H1 Cell Line	embryonic stem cell
25	chr4:96561800-96562400	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr4:96561800-96562400	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr4:96561800-96562600	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr4:96561800-96562600	Enhancers	Fetal Lung	lung
29	chr4:96561800-96563000	Enhancers	Fetal Heart	heart
30	chr4:96562000-96562400	Enhancers	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links