GgaINT0055927 @ galGal3
Intron Retention
Gene
ENSGALG00000005318 | F1NZZ9_CHICK
Description
NA
Coordinates
chr5:8363350-8364356:-
Coord C1 exon
chr5:8364205-8364356
Coord A exon
chr5:8363536-8364204
Coord C2 exon
chr5:8363350-8363535
Length
669 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
AGTTTTGGGGGTTCTTACAGGGA
3' ss Score
4.92
Exon sequences
Seq C1 exon
ATGGAGTGCTCCCTCAGGTTTTATATGAAGTCAATCTACCAATTCTAAATAGTATGGAATGTTCCAGAGCATTGTCAACTTTAAGGAAGCCCATCCAAGGTGACACTATACTGTGTGCTGGATTTCCAGATGGAGGAAAAGATGCCTGTCAG
Seq A exon
GTCAGTTGAACAGAGGGCCTTGTGCACTTGATGTGTTTCTCAGAAGCTCCAGTTTCCAATGCTTAAGTGAGTAAACATACTATAATTTTTGTATTCTATTTTGATGTGTGAATTCTTTAAAAGGATCTGTATGGGAGAATGCACTTAATTCCACGATCTCTTTTAATTATTGTGTGAACTGCATGGCAGGTTCCTGACAGCAACTTCACAATGTATCCCCGTGCTGTAGCGTTTAGGGCTTTTTAACTTCAAGGCACTTGATAAACATTGATTAACAAATGTTCCTAGCGTGGTATGGAGGAAGTTAGAAAGTACTGCCTTGGAGAACAAGAGAAAAAATGGTGGTTCCTTGTCTTGGGAACATGTTAAAATGAAAAAACAAGAAAACAATCTCCTTGCTCCTTTTGTCATGCTTAAGCACAGCATATATGCAGCTAAGTGAATTAATTCATCTCTCCTGTCATCCCAATCCTGACTAAAAACAATAAAAAGGAAAGTCTTTTTTTTAAATGTTTTTTTTTAGTTGTTTCTTTTTTCTTTTTTTCCAAATGACTACTCCCTGTGTGGCAGGTTTACTGCTGCACTACAAAAGATGACTCAATAAACTCTTCAAGACTAGCTTGGTTCACGTGCACTTTTGTGACCTGTGAGTTTTGGGGGTTCTTACAG
Seq C2 exon
GGAGACTCTGGGGGTCCTCTCTTGTGCCGACGTAAGCATGGTGCCTGGATTCTTGCTGGTGTGATTTCCTGGGGGATGGGATGTGCTCGTGGCTGGAGAGGTAATGAGATGAAGAGACATTACGAAAGAGGGTCTCCTGGAATATTCACAGACCTCAGTGCAGTGCTTTCCTGGATTCAAGAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:5
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:
PF0008921=Trypsin=FE(20.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(23.7=93.5)
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:
GGAGTGCTCCCTCAGGTTTTA
R:
TTTCTTGAATCCAGGAAAGCACTG
Band lengths:
334-1003
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]