BtaINT0065016 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007258 | GAD1
Description
Bos taurus glutamate decarboxylase 1 (brain, 67kDa) (GAD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075756]
Coordinates
chr2:25649612-25651252:-
Coord C1 exon
chr2:25651145-25651252
Coord A exon
chr2:25649702-25651144
Coord C2 exon
chr2:25649612-25649701
Length
1443 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GTTTGTGAAAATCGCTACAGCCT
3' ss Score
2.22
Exon sequences
Seq C1 exon
GGTACAGTGGGCTTTGAAAATCAGATCAACAAATGCTTGGAACTGGCTGAATACCTCTATGCCAAGATTAAAAACAGAGAAGAATTTGAGATGGTTTTTGATGGTGAG
Seq A exon
GTAAGCTGTCTGGACTAGCTATATCAAATATCTATTGAGGGAAGTTTACAGAGGGAAGCTTCTGAAGCTGTAGTGTCCCACATTACCAGAAGCTGCTTCTGAATTTTCATTCTATGCACTCTCGTTTACTTCCCTCTGTGTTCACAAATGTTTCTTCCAGTAGCATTGGGACAACTTTTCCCCTTCGCCTCTTCCAGAAAGGTGTAGTTCTCAGCCAGTCCTTCATAGACCAGAGGGCTTTCCTTGGCAGGTCTGAATCCTGTATCATTCTTGGAACTTATTGTGGTGTTGTACCTCCGTGAGAAAGTGTTCTTCAGTTCCAAGAAGCTTGTGGGATGGGTATACCGATCCCAGACCCTTGTCTCCCAAGACTGGTCCTAAAATGAAGTTGTACTTTACATAGATTCGTTATGAGGAGAGCAAGATAAAATGGTCTCTGCCCTGAGTTCAGATCCACACTGCACGCAGTCAGGTGCTTGTTATTCTGCTGTTGGCTGAGTGCCTGTTGTGTGTCTTGCCCCAGACTGGGACCTTGGTTGTAGAGTAGTGACCAAAACAGGTACCATCTCTTCCCTATTGGAGCTCACAGCTGAATAAAGAAAGCTGGAATAGGAGCCAGTGCTGAATAGAAGGAATTACACTCATAATCCAGTGTAATAAAACACTGCCTGCATTCAACTCAGTCTATTTATCAGGCACCTAAACTACTTGTAACACTCTGGAGAGTCGCCAAGTGAACAAGAAAGAGCCCTAAGCTGTTCAAATCCATCATACAGTGCTCGTGCGTTTCACCTCTGGGGCCTCACACTCATCACTTACACTATTTTAAATGTTCCACTAGCAGGTTAAGACGAATGTGATGTCTCCAACCCATGAAAGGTAGGCACAGTGATGGCAGACAGCAATTAGGAAGGAAACTGGAAAACTGTAGCAAGAATGCAGAAGGACTCAAAAAGCATGAGGGTCCTTAGAGAAGGACCACTAAACAATCCAGTACATCTCAGTAAGCCCTGTCTTACAGTTTAGAACCAGTATCAATGTTCATTATGATAATCCTGAGTAATCAGGAGAAGGTTTAGTATTGATAGAATAAAGTCAAAACATTCAGGACCAAAAAAATTAACAATGCTGTGAGCATCTTCTATATATGAGGCACTACAAGATGGCAAGATGGATAATAGCCTTTATTGAAATGATCCAAATGTAGTTTTTTTTAATATTTCGGTGTTCAAAGGTGGGTAACTTCAATCATCGAGAAAATTGGTTATGGGAAATAGCTCTCTTCCCAGATATGATGGGATAAACCGGGCTTTGTTCTCCCAAGTATAGAAGTAACATGAAGCCTTTTTGAGGGATGGGGTGGGGAGTTAGAACAGCTTTCTCTCAAGTTCTCTTAATTTTCTGTTTTGTTTTTTGCATGCTTGTTTGTGAAAATCGCTACAG
Seq C2 exon
CCTGAGCATACGAACGTCTGTTTCTGGTATATTCCACAAAGCCTCAGGGGTGTTCCAGATAGCCCCGAACGACGGGAAAAGCTACACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007258:ENSBTAT00000009547:15
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=0.133
Domain overlap (PFAM):
C1:
PF0028214=Pyridoxal_deC=FE(9.3=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:
GGTACAGTGGGCTTTGAAAATCA
R:
CCTGTGTAGCTTTTCCCGTCG
Band lengths:
198-1641
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]