GgaINT0055926 @ galGal3
Intron Retention
Gene
ENSGALG00000005318 | F1NZZ9_CHICK
Description
NA
Coordinates
chr5:8364205-8365030:-
Coord C1 exon
chr5:8364935-8365030
Coord A exon
chr5:8364357-8364934
Coord C2 exon
chr5:8364205-8364356
Length
578 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
ATTTGTTTTTGTTGTTTCAGATG
3' ss Score
10.63
Exon sequences
Seq C1 exon
GTTCATCAGTTTTGCCAGCATGTCTTCCTGATCCAGGTGAAAAATTTGAAGCAGGATATATCTGCACTGCATGTGGCTGGGGCCGCTTAAGAGAGA
Seq A exon
GTAAGTTACTGAAAGTGTTCTTTGACATTCTGATTTCACAGTGTTTTTGTCAGTCCTTCATTCCTGTGTTCTTCCTTTTCTTAAAATGGGCAATGAATTGTCTAGCAAATCTGTATCTGCGTAGAAAGCAAATGTCTTCAGATCAGTGAGTTTTCTTATCAGATTTTCTTACTCAATTTTAGACATTTTTTTGAGAATTCTATCTGTTCCAGTATGCAGTGTTTATTTCTGAAGCCAAGAGCTTGACTGCATAAGCTGTATACAGACCAGAAGTAACTGTCAACTGAGAATAAGATTGCAGTCGCAAAATGGAATCTCTGCTAGCTTCTGTCTATCTGTGGATTATTTCAAAATGATCACAAAAATATATGGACCTGTATATTATGTTGGAGACACTTCAAAACTTATTCAAGTCAGACTGCTTTTATATGCAAAACTGTATGTTTATCAAAACACGTTCATAGCCATAGGAAGACATGGAGCAAGTTTTCAGCATGTTTTTTTTTGTGTATTAGCAGTGACGTTAAAAGTTCACCACTCAGCATTTCATTTTGAACAATTTGTTTTTGTTGTTTCAG
Seq C2 exon
ATGGAGTGCTCCCTCAGGTTTTATATGAAGTCAATCTACCAATTCTAAATAGTATGGAATGTTCCAGAGCATTGTCAACTTTAAGGAAGCCCATCCAAGGTGACACTATACTGTGTGCTGGATTTCCAGATGGAGGAAAAGATGCCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:4
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(13.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.4=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:
TCATCAGTTTTGCCAGCATGTCT
R:
CTGACAGGCATCTTTTCCTCCA
Band lengths:
246-824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]