Variant report

Variant	rs1839154
Chromosome Location	chr2:33889032-33889033
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10178622	0.80[ASN][1000 genomes]
rs10188943	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11124329	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1448558	0.84[AMR][1000 genomes]
rs1839156	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1839157	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2122020	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2367816	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55831235	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55850044	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6543728	0.80[AMR][1000 genomes]
rs6543733	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6543735	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6712178	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6715333	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6737461	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6750267	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7561863	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3350238	chr2:33849408-33979026	Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv963221	chr2:33877828-33892244	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS	n/a	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1839154	FAM98A	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:33880600-33895800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:33888600-33889400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr2:33888800-33891000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
4	chr2:33888800-33891400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
5	chr2:33889000-33889200	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr2:33889000-33889600	Strong transcription	H1 Cell Line	embryonic stem cell
7	chr2:33889000-33891600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell

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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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