GgaINT0097895 @ galGal3
Intron Retention
Gene
ENSGALG00000008591 | CACNB2
Description
NA
Coordinates
chr2:19055817-19057534:-
Coord C1 exon
chr2:19057383-19057534
Coord A exon
chr2:19055913-19057382
Coord C2 exon
chr2:19055817-19055912
Length
1470 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
AAATGTCTTATTTTCCACAGGTT
3' ss Score
9.03
Exon sequences
Seq C1 exon
CTGAAGTTCAGAGTGAAATTGAACGGATTTTTGAATTAGCAAGGACACTGCAGTTGGTAGTGCTCGATGCTGACACCATAAATCACCCAGCGCAGCTGAGCAAAACCTCTCTGGCACCCATTATAGTATACGTAAAGATTTCTTCTCCTAAG
Seq A exon
GTAAATATTTTACTGATATTTGTGCTACGTAGTCATTTTTCTTTTTATTTTGCTTTGTTAAATGCAGATGATCATGTGTCCTTATTAAAGCTATATACTGTTAATATGTTAATTTGTATAGTGGAGTATTACTAATCAAGGAATACTTTAGCTGTCAGGTTACCAAAACACATTTGGGAAAAGACGCTATAGCTCCAATGATTTTTAACATTGGGATTGTGCTGTGTGTGTTTGCATGTTCTTTAGTATCAATCTTGTAAGTAATGCTAACAATCTATTCGATCAGTAGAGGAAAGAAGGAAAGATTTTAAAATAATGAATATCAGAGTGATGTAGTGAACTCTAACACCTCCTGGTTATGTACTTTCATTCTCCGAAAAACCTGCACAGGCCTTGTGAAGAGGCACTTGAAAGACAATATTGAAATATGATAAGGTTACTGAGGGGAGCAATTAAATGATTTTGATTTAGAAACAAACGCAGAAGCAGCAGAGGAAAACAGGAAGGGAACTTTTTAGTATTGGTAACAGCTCATAGGTGTTTGGGAGTAAATGAAAATTAGCTTGTTTGGGATGTAAACAGCATGGGAGGTGCTTCAGAAGCCAGAAGTAAAGAAAATCATCTGCTCAAGTGGATTTTAAGTGGCTAAAGATGTACATTATGTCCGTACCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAATTCTTCGCAAAATGAATGGGAGAGAGGTCAAACTTATTGTTGGTTCATTTGTTTGTTTGTTTGTTTGTTTGTTTCTCCACTACCAACATACTTCTATAAATGTCTTATTTTCCACAG
Seq C2 exon
GTTTTACAGAGGTTAATAAAATCTCGAGGGAAATCTCAGGCCAAACACCTTAATGTTCAGATGGTGGCAGCTGATAAACTGGCACAGTGTCCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008591:ENSGALT00000013988:10
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:
PF0062516=Guanylate_kin=FE(27.6=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGTTCAGAGTGAAATTGAACGG
R:
GGAGGACACTGTGCCAGTTTA
Band lengths:
246-1716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]