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Platform GPL24842 Query DataSets for GPL24842
Status Public on Jan 06, 2019
Title Agilent-028005 SurePrint G3 Mouse GE 8x60K Microarray (re-annotated according to transcripts in Ensembl 74)
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Mus musculus
Manufacturer Agilent
Manufacture protocol Sure print G3 technology was used to sinthesize each probe according to Agilent technology
 
 
Submission date Apr 04, 2018
Last update date Apr 04, 2018
Contact name Gerolamo Lanfranchi
E-mail(s) stefano.cagnin@unipd.it
Phone +39-0498276219
Organization name University of Padova
Department CRIBI - Biotechnology Center and Biology Department
Lab Functional Genomics Lab
Street address Via U. Bassi, 58/B
City Padova
ZIP/Postal code 35131
Country Italy
 
Samples (51) GSM3081965, GSM3081966, GSM3081967, GSM3081968, GSM3081969, GSM3081970 
Series (4)
GSE112716 Long non-coding RNAs expressed in fast gycolytic and slow oxidative myofibers
GSE112768 Subcellular localization analysis of long non-non coding RNAs (lncRNAs) in skeletal muscle myofibers
GSE137189 Gene expression analysis of intestinal stem cells (ISCs) from polyI:C treated WT mice or Ifnar1-/- mice.

Data table header descriptions
ID
SEQUENCE Sinthesized oligonucleotide sequence
ControlType Control type: 0 indicates probe for transcripts; 1 indicates probes for Agilent controls
ProbeName Agilent derived probe name
GeneName Agilent derived gene name
SystematicName Agilent derived Systematic name
Description Agilent derived description
Row Row
Col Column
new_ensebl New annotation according to Ensembl 74
new_type Type of transcript(s) identified by the probes according to Ensembl 74
new_symbol New gene symbol identified by the probe according to its blast against transcripts in Ensembl 74
SPOT_ID Description for the ability of the probe to identify long non-coding RNAs (lnc) or coding RNAs according to their categorization in Ensembl 74

Data table
ID SEQUENCE ControlType ProbeName GeneName SystematicName Description Row Col new_ensebl new_type new_symbol SPOT_ID
1 1 GE_BrightCorner GE_BrightCorner GE_BrightCorner 1 1 NA NA NA NA
2 1 DarkCorner DarkCorner DarkCorner 1 2 NA NA NA NA
3 1 DarkCorner DarkCorner DarkCorner 1 3 NA NA NA NA
4 CAGTTTGTGGATCTGACTATATCACTTACGGGAATAAATGCAAGCTGTGTACAGAGATCT 0 A_55_P2051983 Spink7 NM_001001803 "ref|Mus musculus serine peptidase inhibitor, Kazal type 7 (putative) (Spink7), mRNA [NM_001001803]" 1 4 ENSMUSG00000060201 protein_coding Spink7 "serine peptidase inhibitor, Kazal type 7 (putative) [Source:MGI Symbol;Acc:MGI:3644691]"
5 TAAACAAAGGGATGTCCAAGATGGATGCCATGAGGATCTACATTGCTAAAGTGGAAGAGC 0 A_52_P169082 Dbil5 NM_021294 "ref|Mus musculus diazepam binding inhibitor-like 5 (Dbil5), mRNA [NM_021294]" 1 5 ENSMUSG00000038057 protein_coding Dbil5 diazepam binding inhibitor-like 5 [Source:MGI Symbol;Acc:MGI:108039]
6 CCATTAGAGCTGACTCCAAGCCATCAGTCCCAACGAGGAATGGTGAATTGGCTTCATCTA 0 A_30_P01028193 chr14:47978277-47985238_F chr14:47978277-47985238_F lincRNA:chr14:47978277-47985238 forward strand 1 6 NA NA NA NA
7 GTGGAGCTTCCATATCCAAAATCGTGCAACTGGGATTTTTCTACAGACACACAAGTTAGC 0 A_52_P237997 Negr1 NM_177274 "ref|Mus musculus neuronal growth regulator 1 (Negr1), transcript variant 2, mRNA [NM_177274]" 1 7 ENSMUSG00000040037 protein_coding Negr1 neuronal growth regulator 1 [Source:MGI Symbol;Acc:MGI:2444846]
8 TAATCTTTGAATTTCATCTGTAGCTGAGTGACAGGTGTGTTTGGAGCAGTCATTAAATGA 0 A_51_P414243 C85492 NM_153540 "ref|Mus musculus expressed sequence C85492 (C85492), mRNA [NM_153540]" 1 8 ENSMUSG00000066235 protein_coding Pomgnt2 "protein O-linked mannose beta 1,4-N-acetylglucosaminyltransferase 2 [Source:MGI Symbol;Acc:MGI:2143424]"
9 ATGTTCTTCATCACCCTAATGAGTGTGGACAGGTATCTGGCTATTGTCCACGCTGTCTAT 0 A_55_P2136348 Ccr8 NM_007720 "ref|Mus musculus chemokine (C-C motif) receptor 8 (Ccr8), mRNA [NM_007720]" 1 9 ENSMUSG00000042262 protein_coding Ccr8 chemokine (C-C motif) receptor 8 [Source:MGI Symbol;Acc:MGI:1201402]
10 CGAGAATTGGGGTCCTAACTCTACATTGTGATAAATGGAAGAACTCTGAGGTATCCCTGT 0 A_51_P108228 Chrna7 NM_007390 "ref|Mus musculus cholinergic receptor, nicotinic, alpha polypeptide 7 (Chrna7), mRNA [NM_007390]" 1 10 ENSMUSG00000030525 protein_coding Chrna7 "cholinergic receptor, nicotinic, alpha polypeptide 7 [Source:MGI Symbol;Acc:MGI:99779]"
11 GGGGAACTTCAAGTAACAAACATTTATTAATTAGACTTCTGAACTACCAATGGGGCAGAA 0 A_30_P01033363 chr7:134807861-134809001_R chr7:134807861-134809001_R lincRNA:chr7:134807861-134809001 reverse strand 1 11 ENSMUSG00000030814 protein_coding Bcl7c B cell CLL/lymphoma 7C [Source:MGI Symbol;Acc:MGI:1332237]
12 ATACATAAATGATACATCTTCGCTGATCTCGGCTAGCAGTGCCATGTCACTTCTGCAGCT 0 A_55_P2049737 Gm4619 XM_001476246 "ref|PREDICTED: Mus musculus hypothetical protein LOC100046466 (LOC100046466), mRNA [XM_001476246]" 1 12 NA NA NA NA
13 TCTCAGGCGCGGTTTCTGATTGAATGCAGAGGTCACACGCATGCCTCCCTGTATTACCTG 0 A_30_P01024440 chr17:3213918-3257944_F chr17:3213918-3257944_F lincRNA:chr17:3213918-3257944 forward strand 1 13 NA NA NA NA
14 AGGGTCACTCTTCCAGGAGCATTCACATAACAGTCTTTGTGCACTGAATACACTGACTGT 0 A_30_P01025554 chr8:72663591-72671154_F chr8:72663591-72671154_F lincRNA:chr8:72663591-72671154 forward strand 1 14 ENSMUSG00000002345 protein_coding 2310045N01Rik RIKEN cDNA 2310045N01 gene [Source:MGI Symbol;Acc:MGI:1919618]
15 TTGAAGGGGAAGAGCAGAGACCTCACACTGTACAGAGGCCATGCCTGTCACAGGCTAGTC 0 A_30_P01031558 chr17:13812666-13820504_R chr17:13812666-13820504_R lincRNA:chr17:13812666-13820504 reverse strand 1 15 ENSMUSG00000085705 processed_transcript Gm16046 lnc
16 TCTGTTGCATCTGAATCCTTCCATTGTTTTGGAACAATGCTGTCAGATGCAAGTGCCCTG 0 A_30_P01030675 chr6:67054389-67054857_F chr6:67054389-67054857_F lincRNA:chr6:67054389-67054857 forward strand 1 16 NA NA NA NA
17 CCGTGTACAGTTATCTGGACCACAGGAGGCAGAAAAATATGTTCTACACATGATAGAAGA 0 A_51_P328014 Cops3 NM_011991 "ref|Mus musculus COP9 (constitutive photomorphogenic) homolog, subunit 3 (Arabidopsis thaliana) (Cops3), mRNA [NM_011991]" 1 17 ENSMUSG00000019373 protein_coding Cops3 "COP9 (constitutive photomorphogenic) homolog, subunit 3 (Arabidopsis thaliana) [Source:MGI Symbol;Acc:MGI:1349409]"
18 TATCTGCTAAGCATTGCAGCTCCTGTGCCCTTCTACACATTTTTATTTCCAGAGAAGGTA 0 A_30_P01019108 chr3:4797557-4798821_F chr3:4797557-4798821_F lincRNA:chr3:4797557-4798821 forward strand 1 18 ENSMUSG00000098659 lincRNA RP23-442I7.1 lnc
19 ATTTCTTCTGTTCCACTCTGTGCACATGGCGTTTCAGGGTACGAGGTGTAGCATCTTTAT 0 A_55_P2056220 A_55_P2056220 A_55_P2056220 Unknown 1 19 NA NA NA NA
20 TTTTGTTAGCATCAGGACTGTAGTGCTGTGTCACCACATGAGAGTTCAGAAGCAGCCTTT 0 A_55_P1985764 LOC100047875 XM_001479044 "ref|PREDICTED: Mus musculus similar to Hspd1 protein (LOC100047875), mRNA [XM_001479044]" 1 20 NA NA NA NA

Total number of rows: 62976

Table truncated, full table size 15535 Kbytes.




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