GgaINT0119197 @ galGal3
Intron Retention
Gene
ENSGALG00000015358 | Q91377_CHICK
Description
NA
Coordinates
chr1:90791505-90793307:-
Coord C1 exon
chr1:90792918-90793307
Coord A exon
chr1:90791632-90792917
Coord C2 exon
chr1:90791505-90791631
Length
1286 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGG
5' ss Score
6.6
3' ss Seq
CTCTTCTGATTCCTATTTAGGCA
3' ss Score
9.01
Exon sequences
Seq C1 exon
GCTCGTATAGAAGAGCTGGAAGAGGAGCTGGAAGCAGAAAGAGCTGCTCGAGCCAAGGTGGAAAAGCAGAGATCAGATTTGGCCCGAGAGCTGGAGGAATTAAGTGAGCGGCTTGAAGAGGCTGGGGGTGCCACTGCTGCCCAGCTGGAGATGAACAAGAAACGTGAAGCTGAGTTCCTGAAGCTGCGGCGTGACCTCGAGGAGGCCACGCTGCACTATGAAGCCACAGCTGCTGCTCTGAGGAAGAAGCATGCGGACAGCGTGGCTGAGATGGGGGAGCAGCTGGACAACCTGCAGCGCGTCAAGCAGAAACTGGAAAAGGAGAAAAGCGAGCTGAAAATGGAAGTGGATGATCTGACATCCAACATGGAGCAAACGGTTAAGGGAAAA
Seq A exon
GTAAGGGCCTTGAGACTTCCCAAACTCCCCAATGATCATGTGTAGCCAAGGCTTGTCCGAAGGCTTCCCAGTAGAGCTGGTAGGGCTGGCATGTTTCAGAAAGTTGTATCTTGCAATCTGGTGGTGCTTGTGTGTGCAGTATCACCCTTTCCCCAGCTGGTGGTATAGCCCTTCTCACTTGGAGACAGAATAGCCATTGAAATGGCCTATCTCAGATGTAGTACATCCTCAGTCCCAGACATACTGGTTATTCACATGTCTCAGAGCACAGAACCATGCCGCTTAAATAGTGCTCACCTAGGCTGATGATGACTGCAGTGATGCCATTCAAGGCTGTACAGCTCAGATGGTGATCTTGGCTCACAGTTTTGACTCACATTAGCAAGGAATGTAAAACATGACCACATGACTCGCATGACCATTCTGTTCATTTTCACTTCCTATGGCTGAATTATGCATTTTGCTTTCTCAGTAGACAGTCTTGGCAGCTTTCAGAGCACTCTAAAGAGTCTGCTCTGTGAAACTGAAGACAGGATTTCACTATTCTGAGTACAAGAAGGCTGACATCAAACTCAATTTTTGGTAAATAGCAATTACAGCAGAATCAGTAAAGCAGTTTTCACTGGAGATGATTTTCCCATCTAACAACTGTGATGCAGCTTTTGTCTGAACTTCATAGGCATATGATTGGTTCCAAAGGTCTTGCAGAGATTTTGTCTCTGGTGCTTCACTTCAGAACACAGCAAATGAGAAAGGTGTTCTGATGGGGAGACCCCTGCCTGGGACCACAGACACAGGGTTTCTATTCCCCATTTTACTGCTGTCCTCCAAAGTGACATGGCAGCTTTTCTTCCCACAGTTCCAGTGTCCTTGTCTTCAAAACAGTGACAATATGTGCACACACACACAGCCCTGATGAGCGGGATTATTTCTTCTTGATTACTTTTAAAACTGAGCCAAATCTCAAATTCTTTATTCATGTTCCAGGCACTCAGTGTTCCTGTAAGGCGCATTTCATTGTTGTCTTATTTGGTGGAAAACAGAAAAGTAGTATTTGCTAGGTCAAATTGCTCTTTAAACCAGGATGCCAATCGAACATGCTATAACAGTTCTTGCTGTAAAGCTTATGAAGATCAGGCCTTACCCTCTCATCAACATTCACTACATGCTGGTGGTGGAAGAGATATTTGTGTCTTTGTTATCTGCTGTTTATTTGAAAGGGGCACAGCTTCCAAATGGCTACTTGGAGGCTGCAGCTTTGTATGTCTCTTCTGATTCCTATTTAG
Seq C2 exon
GCAAATGCAGAAAAACTTTGTCGCACTTATGAAGATCATCTTAATGAGACAAAAACTAAACTGGATGAAATGACTCGCCTCATGAATGACCTCACTACTCAAAAGACAAAACTCCAGAGTGAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015358:ENSGALT00000036887:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.708 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(15.0=100),PF0003816=Filament=PU(14.2=26.2)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(4.9=100),PF0003816=Filament=FE(17.5=100),PF0003816=Filament=PU(3.9=27.9)
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:
GCCCAGCTGGAGATGAACAAG
R:
GGTCATTCATGAGGCGAGTCA
Band lengths:
343-1629
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]