GgaINT0032045 @ galGal3
Intron Retention
Description
NA
Coordinates
chr9:14296110-14297474:-
Coord C1 exon
chr9:14296904-14297474
Coord A exon
chr9:14296310-14296903
Coord C2 exon
chr9:14296110-14296309
Length
594 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
AGCCTTTTATTCTTTTTCAGCTA
3' ss Score
9.17
Exon sequences
Seq C1 exon
GTGAACGGTGAGTACCGGACCCTGCCGGTGAGCGCAGCAGGAGGAGCCATCACCGTGAGCAGTAGCGGCCGCTACGTCGTCCTGGAGACGGACTTCAGCCTCCACGTGTCCTACGACGCTGACCACTCGGTGGAGGTGAAGGTGCCCAGCAGCTACTTCAACCTGACGTGTGGCATGTGCGGGAACTTCAACAACCGGAGAGAGGACGATTACATGATGCCCAACGGGCAGCAAGCCGCAGACTCCAATGCGCTGGGGGAGAGCTGGCAGGTCCCAAGCAGTGACAGTGACCCCAGCTGCGGCGTGCCCCCACCAACAGAGCCCTGCCCTGCAGACAAGGAGAAGCTCTACGAGTCCGAGCAGTTCTGTGGCATGCTGACAGCCAGACCAGGCGTTTTTGAGAGCTGCCACGCCGTGATCAACCCGCAGAGCTACTTTGAGACCTGCTCCTACGACCTTTGTGCCATGAGTGGTGCGCAGGAGGTGCTGTGTGGTGCGCTGGAGGCCTATGCTGACGCATGCCAGGCAGCTGGTGTGACTCTGCTCCCCTGGAGGAATGCCACCTTCTGCC
Seq A exon
GTGAGTACCTATGTAGAACTGAATCTTAGAATAGTTCCTTCCATTTTCAAAAGTCTGCTTTCAGGCGTTAACAGACATAGCTTAGAAATCTTAAATTCTGCTTACATTCCCCCATGAAATGCTGAGAAATAATCTTCTACAACGGTCACTCCACTCTTTTTACTGCCAGATCTCTTTCGAGAACTGTGCTCATTATTGAAAGAATCTATGTCATAGAGTTAGCAGTAAGCCCATGATAGTATGTAATCACCTCTGTGTTTTATCACATATTTTGCTTTTAATATGTTTGTTAGTATCCTGTCTACATTTAATAGCTTCAATAATTCATGTACCAACTAAGTACTGGACCTGTTATAGAGTGACTTATTTTTCTCTTTGATTTGAATTTGCTAAATTTCAACAATATATGTTAATATTCATGCCCTTCTCTTGTAGAATATTATTTTTCTTTCTGATTTCAAACCAGGAAATAAATTTTATATTCTGATAATATTTCTGATAAAATATAGCCAGTATTTTAAAATAATCTCAGTTTCATATTTTGGGTTGATGTGAGTTGTAATTATCATTTGAGAGCCTTTTATTCTTTTTCAG
Seq C2 exon
CTATTGCATGTCCTGCTAACAGCCATTACAATCCATGCACCAGTGCATGTCCTGCAACCTGCACTGACCCTCTTGCATCAAACAACTGCAGCAAACCTTGTGTAGAGGGATGTGAATGCAACGATGGTTTTGTCATCAGTGGGGCACAATGTGTATCTATGAGCAACTGTGGCTGCTTACAGAATGACAAATATTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007208:ENSGALT00000011664:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.147 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(48.7=39.8),PF133491=DUF4097=PD(55.7=33.5),PF087426=C8=WD(100=39.8)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=80.6),PF127142=TILa=PU(16.4=13.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTCTGTGGCATGCTGACAG
R:
GCCCCACTGATGACAAAACCA
Band lengths:
355-949
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]