GgaINT0038341 @ galGal3
Intron Retention
Gene
ENSGALG00000006188 | CCBL2
Description
NA
Coordinates
chr8:15841760-15843134:+
Coord C1 exon
chr8:15841760-15841846
Coord A exon
chr8:15841847-15843011
Coord C2 exon
chr8:15843012-15843134
Length
1165 bp
Sequences
Splice sites
5' ss Seq
TATGTGAGT
5' ss Score
5.56
3' ss Seq
TTTGTTTTTATTTTTCCAAGAAA
3' ss Score
4.75
Exon sequences
Seq C1 exon
GTAATAATAATAGAGCCATTTTATGACTGTTATGAACCAATGGTAAAGATGGCGGGTGCAAAGCCTGTTTTTATTCCACTGAGATAT
Seq A exon
GTGAGTAGCTTTCTAAAAATTGTTTTTTATATGAAACTTCTATATCTAATACAGTTTGAAAGCCTTATAGGAGATGCTTTTCTGTACAGTGTTTCATTATATCCAATTATACAAAAATGAGATTGATTGTTATAGAGTAAATCTGGGATGATGATAATCCAAAGCAAATCGGATGTTTTACTGGTGCTGGAAAAGGTAGGACAGTGTTTCTCATTTTCTCATTTACTTTAATTTGTGCAGTCTGAAAGCTGACCAACATTCCTTTATTTGGATGTGATCAGAAAATGTTTTCAGTGGAAGTGTGGGAAGGATGATCATGCCAGTGCAAATTCTGTATCTGTTGCATTTCAGAATATTTGGTTTCTGATCCCTTCAGTGACTCACAGAGTGATAGAGTAGAATTTATTTTCTAAAATCCACTTATTATTTAATAAGTGATTATGTGGTAGATGATATATTTATTGGTAAAAAGGAGTTACCATATGGTTAACTTACATATTGGTACTTCTGGCATCGTGTTGACAGGTTGCAAGAATTTTTATGGATGCAAGATGTTGGTCCTGCTACCAAGAGAGGGCTGAGGGACTGCTTTTCTTTCCTGCTAGGCATATATCGGAAAATTAGTATGGCCATGCTCTTTGATCTTAGCAGAAACTGACCCAAACTTCTGTCATCTTCATGTACACTGAGGATGTAACTCCAGAGCCTCAGTGGTAGATGTTTTTAACTCTTTGGCTGTTTTCATGTAGATAAGGAGGGAAGGAGCTAAAATCCTAGTCTAGTGGTGATTTATCTTTCCAGCCAGGCATGCACATAACTTGTTCTAATGTATGGGAAGGCTATAAACTCTACTGTCATATGATTGGACTTCCTGCATTACACACTATTGGTCAGTGTGTGTGTAACCAGATTCTGGAAACTGGTTCCTGGGGAAGCTGTGAGACAGGCATCAGGCAGGACAAGACTGCCACTGTCACAGTAATTTATCTTGATATTAGCCTCCTGTCTGTTTGGGAAGCACCTCCTCCCAGGGAAGCAGAACAGGTTGGAGAAGTTGTCATGTGCAGTTAGTAAAGTGTCTGAGGATGGTAACTTGGGCACCTCTGTTTAGGCAGTAGCAAGTGTTGCATTCCAGTAATGCATGTTTTGTTTTTATTTTTCCAAG
Seq C2 exon
AAAAATGGTGGGAACTCTGCATCTAGTGCTGATTGGATCTTAGATCCAGCTGAACTTGCAAGTAAATTTAATTCCAAAACAAAAGCGATTATTCTGAATACCCCACACAACCCTATCGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006188:ENSGALT00000009984:8
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:
PF0015516=Aminotran_1_2=FE(7.3=100)
A:
NA
C2:
PF0015516=Aminotran_1_2=FE(10.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCATTTTATGACTGTTATGAACCA
R:
CGATAGGGTTGTGTGGGGTAT
Band lengths:
192-1357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]