BtaINT0065023 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007258 | GAD1
Description
Bos taurus glutamate decarboxylase 1 (brain, 67kDa) (GAD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075756]
Coordinates
chr2:25661259-25662837:-
Coord C1 exon
chr2:25662725-25662837
Coord A exon
chr2:25661375-25662724
Coord C2 exon
chr2:25661259-25661374
Length
1350 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
CTGTGTCTTCTTGACGATAGGGG
3' ss Score
5.93
Exon sequences
Seq C1 exon
GTTTACATATGAAATTGCACCAGTGTTTGTCCTCATGGAGCAAATAACACTTAAGAAGATGAGAGAGATAGTTGGATGGTCAAGTAAAGATGGTGATGGGATATTTTCTCCTG
Seq A exon
GTAGGTTTCTGTTCTCTTTTCCAGACTCTCCTCAAGGTTTGCAGTATGGATCCTTAGGATCTTTGAGAACACTAAACACAAAGTGAGTTTGTAGGAGAACAATGACCTGAAAAATATGATTTTTCAATAGTTCTGCCTTCTTTGTCAGAGCAAAGGCTAGCAAGAACACTACATTCTTTGTGTTCTAACCAACCAAAGGCTGTTCTAAACCTGTACAAACTGACAAAGGCTGTGTCTAAACCGTGCTAAACAACTCTGGTCTGATGACAGCAGTTTGATTAAGCTGGGGATTAGGGAATCAAGATTATCAGTGGCTTGATCAATTTTGGCCAAAATAGTATATTTACTTTAAATCTGTAGTTCAGTATAGATACAATAAGAATCTTTAAAACAAGGACAGATAATTTTATAAGTAGGAGGGAGTTTGGAGCGGTGTCAGAGACAGCGTGATTGTATATGCTGTGCTTGTGCTTAGTCACTCAGTCGTGTCCGACTGTTTGCGACCCCATGGACTGTAGCCTGCCAGGCTCCTCTGTCCATGGAATTTTCCAGGCAAGAGTACTGGAGTGGATTGCCATTCCCTTCTCCAGGGAAATCTTCCTGACTCAGGAACTGAACCTGGGTCTCCTGCATTGCAGGCAGATTCTCTACCATCTGAGCCACTATGAGGAAAAGAAGAGAAATAAAAATTGCAATTGTCCAGGCAATTCATCCACAGAATTTGCCATTTAATAATAGGTAACTAATGCAAACATGGCTCATCGTTTGTTGTCCAGACATACCTGATGAGCTCAGTTCTCCTTGCATCTTGACTTAAGTAAATTTGAGTTTGGTCTTATTTTAATACACTTGGAGTTCTCCTAAATGACTCAATAACTCAGTTGGCCTGTTCTTTCAGGACGGTACCCAGGCAGTGTCACTGCTTCCATAGGCTCTGTTACTCTCTCTTTCTCTGTCTTTCTGGCTCAGAGAAAAGATTCATCTTTGCCCAGTAAATAGTCTGAGCAGAATGTAGGAGCAGGAAGGTTGTAACTCACCTATCTCTGCAGCCGCTGCTGCTGCCATCTCTTACATTGCTGTCTAGGCTTCAGGTGGGACGGGCACCAGAGTAAATGAATCATCTCCAGCCAAATTGCCTTCATGGATTTGTTAATGAGTGTGATTATTTGTATTTCCAGGCAAAGGGACCAGAGGGAAGCTCTGGCAATAGGGAAGCCAGCAAAACCTATCAGGATATTTTCCTTCCCCTTTCTGACTTCCCTTGTCTCTTAAGATACCACATCAGCCTTTGTTGTTAAAAACAGTAACGAGGGCGTCCCAACAGCTCCTACTGTGTCTTCTTGACGATAG
Seq C2 exon
GGGGAGCCATATCCAACATGTACAGCATCATGGCTGCTCGCTTCAAGTACTTCCCGGAAGTTAAGACCAAGGGTATGGCGGCTGTGCCCAAGCTTGTCCTCTTCACCTCAGAACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007258:ENSBTAT00000009547:7
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(10.1=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(10.1=100)
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:
TATGAAATTGCACCAGTGTTTGTCC
R:
GTGTTCTGAGGTGAAGAGGACA
Band lengths:
222-1572
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]