GgaINT0055934 @ galGal3
Intron Retention
Gene
ENSGALG00000005318 | F1NZZ9_CHICK
Description
NA
Coordinates
chr5:8358685-8359302:-
Coord C1 exon
chr5:8359163-8359302
Coord A exon
chr5:8358779-8359162
Coord C2 exon
chr5:8358685-8358778
Length
384 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
TTTTTCTTTTTTTTTTAAAGCTT
3' ss Score
10.41
Exon sequences
Seq C1 exon
GATTTCTAGATTCAGGCTGTGAGTCCTTAGCTGTCCTTTTTGAAGAAGGAGTGTTGCAAAGTATGCACTATCCAGAGAATTACAGCAATCTGGCTGTCTGTCAATGGATTATTTGTGCACCAGAGGACCATGTAATCAAG
Seq A exon
GTATAGTAAGTGCCTTTCTTGTGTTTGTGGAATGAAAGTGGGCATCATTTAGTTGACAAGAAAATGTGCAGCTAAAGATGAGCAAGATCTAGCAACATAAGCTTGAATAACACTGTTGGACACAGTTGAGAGAAATGCCTTTCTGCCCCAAAAGGCAGATAGGTTTTGATTTCTCCTTTGGGTTATAGTAAAATAGGATTTCCTGGTTTAAATTTTATCGTGGTGCATTCTTCTAGCAAATTTAATGTGATGTGTGGGGTCTGAACACCACAGAGATCAGACTTTAAGAATATTAAACCTTGAGAATATTAAAGACCTCATTTAGAGCTCTGCATTTCAATTTGTGAATTCAACAAGGTTCACTTTTTTCTTTTTTTTTTAAAG
Seq C2 exon
CTTACATACCAGACTTTTGAAGTAGAAGAGAGTGAAGATTGCTCTTATGATGCTGTTACTGTGTATGAAGATGCGGGAAAAGAGGAGGAAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:12
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:
PF0043115=CUB=PU(36.4=85.1)
A:
NA
C2:
PF0043115=CUB=FE(28.2=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:
TCTAGATTCAGGCTGTGAGTCCT
R:
CAATTTCCTCCTCTTTTCCCGC
Band lengths:
230-614
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]