BtaINT0065017 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007258 | GAD1
Description
Bos taurus glutamate decarboxylase 1 (brain, 67kDa) (GAD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075756]
Coordinates
chr2:25646775-25649701:-
Coord C1 exon
chr2:25649612-25649701
Coord A exon
chr2:25648207-25649611
Coord C2 exon
chr2:25646775-25648206
Length
1405 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGG
5' ss Score
7
3' ss Seq
CTTGTGTTTTCCCTTACAAGGTG
3' ss Score
9.04
Exon sequences
Seq C1 exon
CCTGAGCATACGAACGTCTGTTTCTGGTATATTCCACAAAGCCTCAGGGGTGTTCCAGATAGCCCCGAACGACGGGAAAAGCTACACAGG
Seq A exon
GTATGGAATCTCTCCTTGTCTCTTCTAACCCTCTGCAGTTTCTCTGGCTGGTCAGAACATCCTCATTCTAGGGGTCTGTCTGAACAGAAAGAAATGAAAGCTAAAGGTTTGGGGTGATACAGAGACATCTTGTTATATTCTTCTCCTTGGGTCTGAATTGTCCCCACTGTGGTTCAGATGCAGTGGGAATTTCTAGGGAATGCATCCCTGCATTAGGTTGGTGTTTGTCATCAGAGGGGTTATGTGCTGTGCAGTTGAATAATATACATATTCCTTGAAACTTCCGTACCAAACCATGTCTATTAAAATATCTTTTACTAAGTTTGAGTCAACTCTAATGCTGATTCATTCTAGTTACTGGTTTCTATATCTAGTTTATATGTTACTTATAGTTGTTTGTATTTAACTTATATACTATTTCACTCATCTAATCATTCAACAGATATTTGGTGAGCAGAGTTCATGTGCCAGACAATATCCCAGGTGCTGGATTACTGTATGGAAGTCTTAATTTGTATTGTTGCCCCTGTGAATTTTTCATTTTTGTTTTTTTGACTTTATTATCATTGTCCTGTGTCTGACTTTTGAAATTCAGTTGCACAATGCTTTCTGTAGGAATGTATGATTGGGTAGACTTAAATAGTCATTAGTGGCCATCATCAAAAAACCTACAAATAATAAGTGCTGGAGAGGGTGTGAACAAAAGGGAATCTTCCTATACTGTTTGTGGAAATGTAAATTGGTGCAGCCGCTATGGAGAACGGTATGAAAGTTAGCTATGAAAAGAATAAAATAATGCCATTTGCAGCAGCATGGATGAACCTAGAGATTATCATACTAAGTGAGGTAAGTCAAACAGAGAAAGGCAAATATCCCATGATATCACTTATATGTAGAATCTAAAAAATTATATAAATGAACTTACAAAATAGAAGCAGACTCACAAGCATAAAAAACAAACTTATGGTTACCAGAGAGGAAAGAGGATAGGCGGAAAAGACAAACGAGGAGTTTAGGATTAGCAGATACACACTACTATATATAAAATAAACACAAGATCCTGCTGTATAGCACAGGGAGCTATATTCAATAGCTTGTAATAATCTATAATGAAGAAGAGTCTGAAAAATAACGTGTGTGTGTGTATACCTGAATCACTTTTCTGTCCACCTGAAACTATCACAGTTTTATAAATCAACTGTTTATGTCAATTTAAAAATTAGTCATTAGATACTAGCCATTGAAGAAACTTGGGTGTAAAATACTTCTTTGCCTTTGTGTGAGTGTAAATACATGATGAAAAGCAGGTTGCTCTTTTTTTGCAACTAAGAAATGGGTTGTATTATGAAAAAGAGCATGGTGTTCGTATCGACCTTGAGTTTTGTCTTGTGTTTTCCCTTACAAG
Seq C2 exon
GTGGCCCCAAAGATCAAAGCCCTGATGATGGAATCTGGCACAACCATGGTTGGCTACCAGCCTCAGGGGGACAAGGCCAACTTCTTCCGGATGGTCATCTCCAACCCAGCCGCTACCCAATCTGATATTGACTTCCTCATTGAGGAGATAGAGAGGCTGGGCCAGGATCTGTAACTGCCACCCACAGTACATCAGTTTCTGGGACTTCCCTTTCCCCTCCGCACTCTAGAACAAACCCCTATACGTTGCTGAAACACATAGGCCATTTCATTGAGGGAAAACAGAATATCTTGAAGAATACTGTTAAAACCTTCCTTAAGCTTATTAGAGTTAGCCGGAAATAATGTTCTTTTTCAAAAGTTGCACATTAGGAACACAGTATATATGTACAGTTATATATACCTCTCTCTATAAATACACGTCTGTCTAGTGAGTGTGGTAATAGATCACAGCATGTCTCCCGCTCCAAGAGAATCCATTTTACCTTCTTCCTCAGTAACTGAGGGGCCAAACATGCTGCAAACCAGCTTGCCCAGCCGCCCCAGAAAAGATGTTTTTTCAAAATGCTGTGTGTTGGGGACCAAGGAAAATGCTGTTGGCAGGTGTTGACCTCACCGTCAGTATTTCTCCCGTCTGAAGTCATGATGGATGAGAAAAAGAGCCACTGGGTGACAAGCGTCCCGCCCTCCCCGTTAGGATCCTGTTAGGGGGAAACAGTAGCAGAGTCGTTGTTCCAGGTGTGCTATTGCTGTATATTTCTAGTTTAATTTGTGTAGGTTGTGCATATTTCTGTTGTTTGTCCTTAGGAGGGGGAGGGGAAGAATATATGTAATGATCTCAATGACTGTTTGTAGGTAAATGAAATATTTGCTTATTTATATTCAGAGATTTACCATGTTAAAGAGGTGTCTTGTATTTTCTTCTCATTTGTAATGTATCTTATTTATATATTAATGCAGTAAGTTCTGAAAATTGTTTATGGTATTTTCGTGCACTTGTGAGCCAAAGAGAAAAGACTGAAATTAGTAAGACTTGTATTATATTAGAGTGCCCTTAAAATAATGATTTAAGCATAACTTTACCATCTATAAAAGAATTCTGATACTGTACATAACATCCTATATATGGAAATCCCGAGACTTACATAGCATCTGCTCTTCTATTACTCTGTCTGGCTGTATGTTGGGTGTTCTCTATGCTTTTCTAGTAACTGTTGGATAATAACTAGGTCTTCTGTAATTTTGTAGTAGTTCATGACCAATCTCTGTGACTCCCTTAGCACAAACCTAAGGCAATGTTTCCGAAGACTCTGAAGATCTCAAACTGACCAGGCTCACAACTGTTTTTGAAGAAAGGAAATTCACACTGTGCATTTTAGAGTATGCAAGAAGACTATAAATAAATAAAAATATTCTCTGTGGAGAATTTGAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007258:ENSBTAT00000009547:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0028214=Pyridoxal_deC=PD(2.7=33.3)
A:
NA
C2:
NO
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:
CCTGAGCATACGAACGTCTGT
R:
GGCCTATGTGTTTCAGCAACG
Band lengths:
354-1759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]