GgaINT1008193 @ galGal4
Intron Retention
Gene
ENSGALG00000025788 | CACNB1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:HGNC Symbol;Acc:HGNC:1401]
Coordinates
chr27:4112265-4113409:-
Coord C1 exon
chr27:4113264-4113409
Coord A exon
chr27:4112346-4113263
Coord C2 exon
chr27:4112265-4112345
Length
918 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
CCCCGGTGCTGCCCCCACAGGCT
3' ss Score
8.69
Exon sequences
Seq C1 exon
GTGCCCTGGACACACCTAGCTTTGCCTTTGAGCCCGATGAGTTAGAGGAGGAGGAGGCTGCGGAGACCCACTGCTCCCCTAAGAGTAGTGTGAGCAGTGTCACCACCCCCCCCGCCCACTCCAAGCGCATCCCCTTCTTTAGGAAG
Seq A exon
GTAACAGAGCCCAGTCTGGCCCACGCCTGCCTGCTGCACCCTGCCTGCCCTAACACTGCTGGGGGCTACGGGGGCACTGTGGGGTGGACTGGTCCGTAGCTGCTCCCCCTGTGATCCACAGGATGGATCATTCCATGGATGTATCCCTCTGTCATCCATGGGATGGATCATTCCGTGGCTGTATCTCCCCCATGGTCCATGGATGGATCATTCCGTGGCTGTATCCCCCCATGGTCCATGGATGGATCGTTCCATGGCTGTATCCCCCCATGGTCCATGGGATGGCTCAGTCCATGGCTGTGTGCCCCCTGATCCATCTGATGGAGCAGTCTGTGCCCCCCCTCCCCCCCACCTCAGGGCCCCCCGGTGTGCGCATGGTGTGTGGCACAGCTGTGTTTGTCTCCCCTGCAAATGAGAGTGGAACATTCCTCCCCCCCAAACTGGGCACGGTGCTGGGGGGCTCGGGTGCAACCACTGCACGGGTAGGGGGGTGCTGAGGTGCTGCTCACCCCCAAAGCCTCGCAGAGCCCCTGCTCACACCCCAACGCTAATCAAGAGTAGGGCAGCATTAATACAGAATGAGCTCCACCGGCACGATCTCCCTTTGCCATTGGAGCTGTGCCCCCCCTGGGCTTCCTGGTAACCCCCCAGCCCAGTTTGGGGCCTGAAGCCCCCTCCCACAGTAACACGCATGCCTTGTTTGTCTCCCCCTGCCCGCCCCGGCGCCTCGGGACGTAGCGAAGCAGAAGCAGAAATCGGTGAGTAGCGTCAGGACCCCTGGGTTTGGGGCAGGGGAGGGGGGGGGAAATGGGTTTGCTGCCACTCCTGGGGCATCCCCGTCCCTTGGCATCACCCTGGGCTCCTGCTGTGCTCCCCGGCCCAGTGTGAGCCCCCTGACCCCCGGTGCTGCCCCCACAG
Seq C2 exon
GCTGAGCACGTGCCGCCCTACGATGTGGTTCCCTCCATGCGGCCCATCATCCTGGTGGGGCCGTCGTTGAAGGGCTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000025788:ENSGALT00000043800:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.905 A=NA C2=0.074
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062516=Guanylate_kin=PU(8.3=55.6)
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:
CTGGACACACCTAGCTTTGCC
R:
CTCGTAGCCCTTCAACGACG
Band lengths:
222-1140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]