Variant report

Variant	rs858958
Chromosome Location	chr2:177683611-177683612
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:177682249..177683863-chr2:177688403..177690457,2	K562	blood:
2	chr2:177682864..177683675-chr2:178011785..178012286,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HNRNPA3-11	chr2:177683379-177684873	NONHSAT075679

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

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10184702	1.00[CHB][hapmap]
rs10197209	1.00[CHB][hapmap]
rs10497573	1.00[CHB][hapmap]
rs10930765	1.00[CHB][hapmap]
rs10930767	1.00[CHB][hapmap]
rs12469347	1.00[CHB][hapmap]
rs12693105	1.00[CHB][hapmap]
rs13005005	1.00[CHB][hapmap]
rs13421731	1.00[CHB][hapmap]
rs1355845	1.00[CHB][hapmap]
rs1437725	1.00[CHB][hapmap]
rs1513870	1.00[CHB][hapmap]
rs1513886	1.00[CHB][hapmap]
rs1533303	1.00[CHB][hapmap]
rs1534472	1.00[CHB][hapmap]
rs1545138	1.00[CHB][hapmap]
rs16864479	1.00[CHB][hapmap]
rs16864736	1.00[CHB][hapmap]
rs17628074	1.00[CHB][hapmap]
rs17679370	1.00[CHB][hapmap]
rs1866134	1.00[CHB][hapmap]
rs4893917	1.00[CHB][hapmap]
rs6707899	1.00[CHB][hapmap]
rs6760271	1.00[CHB][hapmap]
rs7588841	1.00[CHB][hapmap]
rs840685	0.94[ASN][1000 genomes]
rs840691	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs840698	1.00[CHB][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs840699	1.00[CHB][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs840700	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs840701	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs840702	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs840703	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs840704	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs860864	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv527737	chr2:177538266-177692572	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv583686	chr2:177538266-177692572	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1006500	chr2:177548521-177707097	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:177680000-177689000	Weak transcription	Primary T helper cells PMA-I stimulated	--
2	chr2:177680200-177689000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr2:177681600-177684200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr2:177681600-177684400	Enhancers	H1 Cell Line	embryonic stem cell
5	chr2:177681600-177684400	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr2:177681600-177684400	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr2:177681600-177684400	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr2:177681600-177684600	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr2:177681600-177684600	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr2:177681600-177685200	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr2:177682000-177684800	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr2:177682000-177689000	Weak transcription	Primary T cells from cord blood	blood
13	chr2:177682200-177684400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr2:177682400-177685800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr2:177682800-177684200	Enhancers	Fetal Kidney	kidney
16	chr2:177683000-177686400	Enhancers	Fetal Lung	lung
17	chr2:177683200-177684800	Enhancers	H9 Cell Line	embryonic stem cell
18	chr2:177683200-177688800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr2:177683400-177684200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr2:177683400-177684400	Enhancers	Fetal Muscle Trunk	muscle
21	chr2:177683400-177684400	Enhancers	Fetal Muscle Leg	muscle
22	chr2:177683400-177685800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr2:177683600-177684000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links