GgaINT0097889 @ galGal3
Intron Retention
Gene
ENSGALG00000008591 | CACNB2
Description
NA
Coordinates
chr2:19075253-19077134:-
Coord C1 exon
chr2:19076998-19077134
Coord A exon
chr2:19075330-19076997
Coord C2 exon
chr2:19075253-19075329
Length
1668 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
AATTTGTTGCTTTACTGCAGTAA
3' ss Score
5.17
Exon sequences
Seq C1 exon
AAATTTAACAATGACTGGTGGATAGGACGGTTGGTAAAAGAAGGCTGTGAAATAGGATTCATACCAAGCCCAGTCAAACTAGAAAACATGAGGCTGCAGCATGAACAGAAGGCAAAGCAAGGGAAATTCTACTCCAG
Seq A exon
GTAACAAGAAGAAATCATTAAAAATAGTAGTGCTGCCTCTAACGGTTAATTTGGAAATTAATGTTGTGCATGCTATACATCTCTTTAATTCTTATGATTGACAGTTAAAGAATGTTGAATCAATGAAAAATATATATTTATTTATACAGTTAATAATGTCATTGCAATTACAGAGGGAGTGCACATGCTTAGACTGGTGGTCTGTGATGATCTATGATGGAGTATGATTTACTGCGCGCAAGCACAGAAATCAGTCCCTCTAAATGTTACACTATTTGTTACTTTTTTCACAGTGTTACATTCACTAAACACCTTTAAAGTTGATTTCAGAAATTAAAGAAAATATTAAGATGAATTTGCTCATAAGCTTTAGCTCTTAGGAAAAACATTTGGGTTTGTCAACTACATTTCAGTTGAATACAGCTGTTAAAATACTGCTTTTATGATGGAAGTTTCTGACTGTAGCCATCATTATATAGAAACAAAAATTCAATATATAAACATTTCGTCCAATACTGCAAGACAGTAATAATATATTCTTTAGTATGGAATTCTTAATGCAGTAGTTTTCCATCAAATAGTAACACATGTAGAAACAAATGCCATTTGTTTCTCCTTGGGTGTATAGGAAATAGAAATATTTGTAGTATGTCTAAATGGCAGGGAGTTGGAAGTGGGGGAACAGCTGGGAAACATTTAGGAAGTCAGAAAGGCTTTCTATTCCAATGGCGAGGGCAGCAGTATTTGAAGAGCGTGTCTACATGAGCAGGGGACCAGGATGCTGCACTGCTCATCCGTGTTCACTGGCTGTGAAATGCTTTTCCTATAAGTTCCCTATCCTTAGCAGGAGGAAGTCAGGCTCCTTGCTCTGCTCCTACCATTTCTGCTATAGCCAAGTCTGACCCAATGTTTTGTTCTTTTCCCAGATTGTAAAAACTTTAATTCTCCAGAACTTCATACTGGAGATAACGTTGCTGTACACTACAAATGAATTTACTTAGTGATTATTAATATTTTAAGATGGGGAAAGTGTCAACTAGTACTGTTACATTAGTTTTTTTAAAAAGGATATAGCATTTCTTACATTCATTTTAGCGTTTTTCTCATTAGAGTAATTGAAATAAACTTATTAAAAATATTGTTTCATATGCACAGCTTGAATAGGCTTTCACAAAGCAGAACTTGACTTAATCTTAAACTGTTTGTAACATACTTTGACAGGCTTATTTTTTGTAAGTTTATACCAAAATAACAAATAAACTTTTACATAATTTGAAAATATTTTAGACAAGCACACTATTAGTTTCACTTGGGTATTCTTAATAACTATTCTGTTAAAGGAAATATGTATACTCACTGATATGAGAATTAATCATAGTAATAAACAATATTATTAGTAATGATATTAATGCCATTAACAGCTAGATCACAATAAGGACATAAAGGCATATGCAACAGAATGAACCTGCAGAGCAAGGAGCATGACTGGTTTTTGCACATCCTCAGTGTTCAAAGTGTACATTCATTTTGTGTAAAATATATATTTCATGCTACTGTCAGAAATACTGTTTGTTCTCAGCTAGCAGCTAATTTAGAAAAAAATAAATAAGGTAGAATAAATACTCAAAAAGCTGTAAAACTACAAACTAATTTGTTGCTTTACTGCAG
Seq C2 exon
TAAATCAGGAGGAAACTCTTCATCCAGTCTGGGTGACATAGTTCCTAGCTCCAGAAAATCGACGCCTCCATCATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008591:ENSGALT00000013988:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.359 A=NA C2=0.849
Domain overlap (PFAM):
C1:
PF0001823=SH3_1=PD(51.2=47.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATTTAACAATGACTGGTGGATAGG
R:
CAGATGATGGAGGCGTCGATT
Band lengths:
214-1882
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]