BtaINT0065031 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008056 | GAD2
Description
Bos taurus glutamate decarboxylase 2 (pancreatic islets and brain, 65kDa) (GAD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205723]
Coordinates
chr13:26995259-26995988:+
Coord C1 exon
chr13:26995259-26995366
Coord A exon
chr13:26995367-26995898
Coord C2 exon
chr13:26995899-26995988
Length
532 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAT
5' ss Score
7.84
3' ss Seq
TTTTACTCTCCACTTCATAGCCT
3' ss Score
7.17
Exon sequences
Seq C1 exon
GGGACCATCGGGTTTGAAGCACATATTGATAAGTGTTTGGAGCTGGCGGAGTATTTATACAATATCATCAAAAACCGAGAAGGTTATGAAATGGTGTTTGATGGAAAG
Seq A exon
GTATATATTCTGATTTCTACAGTGCCCCCCCCCAAGTTTAGTCCATTCTAACTCTTTGTAGTTTTTAAAAATATTTTATTTATGTATTTATTTGGCTGCACCAGGCCTTAGTTGCAGCATGTGGGATCTAGTCCCCTAACCAGGGATTGAACCTGGGACCCCTGCATTGGGAGCGCAAAGTCTTAGGAACTGGACCACCAGGGAAGTCCCCATTCCAGTTCTTCTCAGTGATATTTTTTGAAGTTAAGAATGTACTGTCCAAGTAAGTGAGACCATCACAAAGGAGAAGCGGTGGGGAGGGGGCAACCATTTAGAATGGAAGTATAAATCCAACTCTCTCTCTCACACACACAAATACTGTATAATGGTGTGAAAGTCAGGCAGTTCAAAGGTGATTAGAGGTTTAAAAGTAGGATTGTATCTAGAAGCTGCAGAACAGATTGGAAATTTGGAATTTTCAAATTTTCAAATCCTTGACATTTTCAAACTTGCCTGTTTGGGCTGAGCATGAATTTTACTCTCCACTTCATAG
Seq C2 exon
CCTCAGCACACCAATGTCTGCTTCTGGTACGTACCTCCGAGCTTGCGTGTCCTGGACAACAATGAAGAGAGACTGAGCCGCCTCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008056:ENSBTAT00000010598:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0028214=Pyridoxal_deC=FE(9.4=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=PD(2.7=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATCGGGTTTGAAGCACATA
R:
CTTGGAGAGGCGGCTCAGTC
Band lengths:
194-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development