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Platform GPL18522 Query DataSets for GPL18522
Status Public on Jun 17, 2014
Title MIQE validated qPCR assays
Technology type RT-PCR
Distribution virtual
Organism Homo sapiens
Manufacturer Biogazelle and Bio-Rad
Manufacture protocol see manufacturer's website
 
Description PCR assay; total volume: 5 μl; instrument: CFX384 (with automation); mastermix: SsoAdvanced SYBR; primer concentration: 250 nM each
Samples: cDNA: 25 ng (total RNA equivalents); gDNA: 2.5 ng (Roche); NTC: water + carrier (5 ng/μl yeast transfer RNA); synthetic template (pooled 60-mers in concentration range: 2E7 – 2E1 copies)
PCR program: default cycling protocol for SsoAdvanced SYBR (Ta=60°C)
 
Submission date Apr 02, 2014
Last update date Jun 17, 2014
Contact name Leming Shi
E-mail(s) lemingshi@fudan.edu.cn
Phone +86-18616827008
Organization name Fudan University
Department School of Life Sciences
Lab Center for Pharmacogenomics
Street address 2005 Songhu Road
City Shanghai
ZIP/Postal code 200438
Country China
 
Samples (4) GSM1361812, GSM1361813, GSM1361814, GSM1361815
Series (2)
GSE47792 SEQC Project
GSE56457 A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequence Quality Control consortium

Data table header descriptions
ID
ORF Ensembl gene id
MIQE_location Genome location
targeted Targeted Ensembl transcript id
species
official_symbol Gene official symbol
official_name Gene official name
description
map_location Chromosome map location
gene_type Gene biotype
entrez_gene_id Entrez gene id
UniGene Unigene id

Data table
ID ORF MIQE_location targeted species official_symbol official_name description map_location gene_type entrez_gene_id UniGene
1 ENSG00000170748 11:7112265-7112363 ENST00000306904 Homo sapiens RBMXL2 "RNA binding motif protein, X-linked-like 2" This gene belongs to the HNRPG subfamily of ubiquitously expressed heterogeneous nuclear ribonucleoproteins (hnRNPs). The hnRNPs are RNA binding proteins and they complex with heterogeneous nuclear RNA (hnRNA). These proteins are associated with pre-mRNAs in the nucleus and appear to influence pre-mRNA processing and other aspects of mRNA metabolism and transport. While all of the hnRNPs are present in the nucleus some seem to shuttle between the nucleus and the cytoplasm. The hnRNP proteins have distinct nucleic acid binding properties. The protein encoded by this gene has two RRM domains that bind RNAs. This gene is intronless and is thought to be derived from a processed retroposon. However unlike many retroposon-derived genes this gene is not a pseudogene. The encoded protein has similarity to HNRPG and RBMY proteins and it is suggested to replace HNRPG protein function during meiotic prophase or act as a germ cell-specific splicing regulator. It primarily localizes to the nuclei of meiotic spermatocytes. This gene is a candidate for autosomal male infertility. [provided by RefSeq Jul 2008] 11p15 protein-coding 27288 Hs.121605
2 ENSG00000196156 17:39323626-39323768 ENST00000391356 Homo sapiens KRTAP4-3 keratin associated protein 4-3 Not Available 17q12-q21 protein-coding 85290 Hs.307023
3 ENSG00000231068 21:32090859-32090987 ENST00000444335 Homo sapiens KRTAP21-3 keratin associated protein 21-3 Not Available 21q22.11 protein-coding 100288323 Hs.580877
4 ENSG00000235935 17:75426388-75426518 ENST00000422783 Homo sapiens Archived Gene Archived Gene Not Available Not Available protein-coding NULL Not Available
5 ENSG00000172487 11:56128337-56128457 ENST00000303039 Homo sapiens OR8J1 "olfactory receptor, family 8, subfamily J, member 1" Olfactory receptors interact with odorant molecules in the nose to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the genome. The nomenclature assigned to the olfactory receptor genes and proteins for this organism is independent of other organisms. [provided by RefSeq Jul 2008] 11q12.1 protein-coding 219477 Hs.626841
6 ENSG00000254997 11:71259591-71259706 ENST00000528743 Homo sapiens KRTAP5-9 keratin associated protein 5-9 Not Available 11q13.5 protein-coding 3846 Hs.709220
7 ENSG00000183161 11:22644544-22644623 ENST00000327470 Homo sapiens FANCF "Fanconi anemia, complementation group F" The Fanconi anemia complementation group (FANC) currently includes FANCA FANCB FANCC FANCD1 (also called BRCA2) FANCD2 FANCE FANCF FANCG FANCI FANCJ (also called BRIP1) FANCL FANCM and FANCN (also called PALB2). The previously defined group FANCH is the same as FANCA. Fanconi anemia is a genetically heterogeneous recessive disorder characterized by cytogenetic instability hypersensitivity to DNA crosslinking agents increased chromosomal breakage and defective DNA repair. The members of the Fanconi anemia complementation group do not share sequence similarity; they are related by their assembly into a common nuclear protein complex. This gene encodes the protein for complementation group F. [provided by RefSeq Jul 2008] 11p15 protein-coding 2188 Hs.713574
8 ENSG00000172324 11:59189664-59189737 ENST00000302040 Homo sapiens OR5A2 "olfactory receptor, family 5, subfamily A, member 2" Olfactory receptors interact with odorant molecules in the nose to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the genome. The nomenclature assigned to the olfactory receptor genes and proteins for this organism is independent of other organisms. [provided by RefSeq Jul 2008] 11q12.1 protein-coding 219981 Hs.553648
9 ENSG00000257028 15:80216599-80216673 ENST00000542003 Homo sapiens AC015871.2 C15orf37 protein; Uncharacterized protein Not Available Not Available protein-coding NULL Not Available
10 ENSG00000221836 7:143747741-143747862 ENST00000408906 Homo sapiens OR2A5 "olfactory receptor, family 2, subfamily A, member 5" Olfactory receptors interact with odorant molecules in the nose to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the genome. The nomenclature assigned to the olfactory receptor genes and proteins for this organism is independent of other organisms. [provided by RefSeq Jul 2008] 7q35 protein-coding 393046 Hs.553793
11 ENSG00000130522 19:18390796-18390858 ENST00000252818 Homo sapiens JUND jun D proto-oncogene The protein encoded by this intronless gene is a member of the JUN family and a functional component of the AP1 transcription factor complex. It has been proposed to protect cells from p53-dependent senescence and apoptosis. Alternate translation initiation site usage results in the production of different isoforms. [provided by RefSeq Jul 2008] 19p13.2 protein-coding 3727 Hs.2780
12 ENSG00000187166 12:48722768-48722835 ENST00000335017 Homo sapiens H1FNT "H1 histone family, member N, testis-specific" Not Available 12q13.11 protein-coding 341567 Hs.155833
13 ENSG00000175911 17:78978613-78978760 ENST00000321930 Homo sapiens AC127496.1 Uncharacterized protein Not Available Not Available protein-coding NULL Not Available
14 ENSG00000185668 1:38509598-38509745 ENST00000373012 Homo sapiens POU3F1 POU class 3 homeobox 1 Not Available 1p34.1 protein-coding 5453 Hs.1837
15 ENSG00000185115 15:29561350-29561490 ENST00000332303 Homo sapiens NDNL2 necdin-like 2 The protein encoded by this gene is part of the SMC5-6 chromatin reorganizing complex and is a member of the MAGE superfamily. This is an intronless gene. [provided by RefSeq May 2011] 15q13.1 protein-coding 56160 Hs.94011
16 ENSG00000177234 10:122359273-122359381 ENST00000369071 Homo sapiens C10orf85 chromosome 10 open reading frame 85 Not Available 10q26.12 protein-coding 404216 Hs.196578
17 ENSG00000256073 21:33765704-33765805 ENST00000534991 Homo sapiens C21orf119 chromosome 21 open reading frame 119 Not Available 21q22.11 protein-coding 84996 Hs.58149
18 ENSG00000183130 1:248789937-248790050 ENST00000330803 Homo sapiens OR2T11 "olfactory receptor, family 2, subfamily T, member 11" Olfactory receptors interact with odorant molecules in the nose to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the genome. The nomenclature assigned to the olfactory receptor genes and proteins for this organism is independent of other organisms. [provided by RefSeq Jul 2008] 1q44 protein-coding 127077 Hs.626619
19 ENSG00000198283 11:58275373-58275449 ENST00000360374 Homo sapiens OR5B21 "olfactory receptor, family 5, subfamily B, member 21" Olfactory receptors interact with odorant molecules in the nose to initiate a neuronal response that triggers the perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the genome. The nomenclature assigned to the olfactory receptor genes and proteins for this organism is independent of other organisms. [provided by RefSeq Jul 2008] 11q12.1 protein-coding 219968 Hs.553647
20 ENSG00000188425 19:46417076-46417190 ENST00000341294 Homo sapiens NANOS2 nanos homolog 2 (Drosophila) Not Available 19q13.32 protein-coding 339345 Hs.434218

Total number of rows: 20801

Table truncated, full table size 10121 Kbytes.




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