BtaINT0065010 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007258 | GAD1
Description
Bos taurus glutamate decarboxylase 1 (brain, 67kDa) (GAD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075756]
Coordinates
chr2:25684041-25685832:-
Coord C1 exon
chr2:25685663-25685832
Coord A exon
chr2:25684186-25685662
Coord C2 exon
chr2:25684041-25684185
Length
1477 bp
Sequences
Splice sites
5' ss Seq
TAGGTGGGT
5' ss Score
5.56
3' ss Seq
GCTCTCGAATCTCTTTGCAGCCT
3' ss Score
7.74
Exon sequences
Seq C1 exon
CCTCTCTTCCAGGAGCTCGCGTGCGGGACGGTGCTAGCAAAAGAGAGGCTGCATCTGGAGGTGACGCCGGGCAGATTACGCCTGAGGCAGAGCCGGGCCGAGCCGGGCAGATCGCTGGGCGCTACGCAGAAGAGCGGCAGGAGCGCGCGGCTTGCTGTCTCCCAGCCTAG
Seq A exon
GTGGGTAAGCGCGCAACCGCCGGGACCTTCCCAGTGCCCAGTTGTGATTGTTCAGCTGGGTCCTGTTCAGCCGCGGTTTCATGGCCAACCCCCACCCCCAGAGTCTGTCGTCTATACCCTCCTGAACCGAGAGCTTCCCGCCCGCCCCAGTCTTAGCTCCCGGTTCCTGCGCGATGCAGAGACCTCAGCCTTCACAATCATCCTATCCCCATCAGCGAGATTCATGCCCCGAGGACGCACAGAGGCTGAGGCTCACGCAGGAGTGGAGAGAGAGCGATTTTCTCCTCCGCTTCCCGGCTGCGAGCACCGGTCTCACCAACGGGCTCCTGGCCAGCAGCAGCCGAAGGCGCGACTCAGAGCGGTAACCTGTTACTTCCCCAGAAACCGCTGTCTCCCAGCTGCCTACGTTGCTGTGCGAGTGCGCGCGCGGGGCTAGGTGTGGGGGTCCTATGGAGAGTGTGGAGGCGGTGGCCTGCGGGCGCTACTCTGCAGGCTCTTGTATCTACCCAGCTTTGCCCGCACTCTCTCTGTTCCCTGGCCTTCGGAAGCCATCGCACCAATGCTGAGCGCGGAGAAGGGACGCCGCGCACCTATCCTTATCTGCCGCCTCCCACCCGCTGGGCACAAGTTGGTTTCCCCGGTGATATTCCCCTTTCTTGCCTCCCTCACCCTCCCCAGGTCTGTACAGCGAGAAATCCGGGGTGGAGGGGAAATACAGAAACAAGAATGGAGCCCGGTTCTTGGCTTCGAAATGGCTTAAAGCGGGTGGGGCAAGAGGGAGACGAGCGAGGTTCCGACTCGCTGCTTTCTGGCTGTCTGGAGTACAAGGTGACTGTATATCTTCCCCAGCCAAATCCGAGGGAGACCGTGAAAAGACAAACCCCTTTTTCTCCTCTCACCTTGTCTCACCAAAGTCCCCGTTCCCTGGAGCAGTTAGCCTCCTTCTTTTTAGGGAATTAGCCAGACACAACAACGGGAACCAGACACCGAACCAGACGTGCCCGCCCTGTGCGCCCTCCTCCTGCTCACCAGCCCCCCCACCCGCCCCGCGCCCCTCCCGCCTGCCCGCCAGCCGGCTGCTGAGACCCAATAGGGCTTGTCACGGCTGGGCTGGAAAATCGCGCACTGAGTCTCCCTAGCCCTCCTAGCCCAGCCGCCCGAACCCGCGCGACCTGCACTGGCCTTGGGTTCCCCTAGTCTCAGCGCTGCGCTCCAGGTCGCGCCACCGCGCCGCCAGACTGGAGAGGAGCCCGGGGCTACGTTGCGAGCGCCCGAATCCCAGAGCTCGCGTGCACGTCTCCTCCTCCCCCAGTCCCCAACCTGGCGCTCCCCCAACCCAGCCCGCCAGCTGCCCTTCCTTTCGCCTCTCCCTAGCCCAGACTTAAGCGGGAGCGTCCGCGCCCCCGCCCGCTCAATCGCCTCTCGCGCTCCTGGACCCCGGAAGCCCTCCCCATACAGCTCTCGAATCTCTTTGCAG
Seq C2 exon
CCTTTTCTAGTGCCCGACCGGCCGAGGACCCCGGACAGCAGAGGCCTCGGGACGACCGAGCTGATGGCGTCTTCGACCCCTTCTTCGTCCGCAACCTCCTCGAACGCGGGAGCGGACCCCAATACTACCAACCTGCGCCCCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007258:ENSBTAT00000009547:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.786
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCTCTTCCAGGAGCTCGC
R:
GGGCGCAGGTTGGTAGTATTG
Band lengths:
310-1787
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]