Variant report

Variant	rs1885477
Chromosome Location	chr10:4164366-4164367
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	chr10:3826233..3829471-chr10:4161588..4164936,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1033778	1.00[JPT][hapmap]
rs10508276	0.94[CEU][hapmap];0.90[TSI][hapmap];0.94[EUR][1000 genomes]
rs10904194	0.82[JPT][hapmap]
rs10904197	0.85[JPT][hapmap]
rs11592324	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs11595827	0.99[EUR][1000 genomes]
rs12412777	0.85[JPT][hapmap]

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	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv831772	chr10:4039292-4212218	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1885477	LARP4B	cis	cerebellum	SCAN

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4162800-4164400	Enhancers	Primary hematopoietic stem cells	blood
2	chr10:4162800-4164400	Enhancers	Skeletal Muscle Female	skeletal muscle
3	chr10:4162800-4164600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr10:4162800-4164600	Enhancers	Primary T helper cells PMA-I stimulated	--
5	chr10:4162800-4164800	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr10:4162800-4165400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr10:4162800-4165800	Enhancers	Fetal Lung	lung
8	chr10:4163000-4166800	Weak transcription	Pancreas	Pancrea
9	chr10:4163000-4173400	Weak transcription	NHLF	lung
10	chr10:4163400-4164400	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr10:4163600-4164400	Enhancers	Primary T cells fromperipheralblood	blood
12	chr10:4163600-4164400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr10:4163600-4164400	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr10:4163600-4164400	Enhancers	Sigmoid Colon	Sigmoid Colon
15	chr10:4163600-4164800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr10:4163600-4165200	Enhancers	Fetal Muscle Leg	muscle
17	chr10:4163600-4165200	Enhancers	Stomach Mucosa	stomach
18	chr10:4163800-4164400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr10:4163800-4164400	Active TSS	Rectal Mucosa Donor 29	rectum
20	chr10:4163800-4164400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
21	chr10:4163800-4164800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr10:4164000-4164400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr10:4164000-4164400	Enhancers	Fetal Stomach	stomach
24	chr10:4164000-4164400	Enhancers	Rectal Mucosa Donor 31	rectum
25	chr10:4164000-4165200	Weak transcription	Right Ventricle	heart
26	chr10:4164000-4167000	Weak transcription	Left Ventricle	heart
27	chr10:4164000-4170000	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr10:4164200-4164400	Flanking Active TSS	Fetal Heart	heart
29	chr10:4164200-4164400	Enhancers	GM12878-XiMat	blood
30	chr10:4164200-4164600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
31	chr10:4164200-4164800	Enhancers	Primary B cells from cord blood	blood
32	chr10:4164200-4165000	Enhancers	Primary B cells from peripheral blood	blood
33	chr10:4164200-4165600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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