GgaINT0068417 @ galGal3
Intron Retention
Gene
ENSGALG00000013571 | F1NUN5_CHICK
Description
NA
Coordinates
chr4:63226617-63227183:+
Coord C1 exon
chr4:63226617-63226792
Coord A exon
chr4:63226793-63227087
Coord C2 exon
chr4:63227088-63227183
Length
295 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
TATTTTTAATCATGTTTTAGATC
3' ss Score
8.47
Exon sequences
Seq C1 exon
TGTTCAGAACCCCAACATTTGGCGTGTTTATGCTGGTGTTTTAAAACAATCAGAAATAAATGAGAATACACCTTTCTTCAGAGTGGAAGAGATTATTATTCATCCTCAGTATAATTCTGCACAGACTGGATATGACATTGCTTTACTGAAGCTTGATAAGGCTATGAATTTTACTG
Seq A exon
GTATGTATTCTATCTCAGAAGGAAATGTGCGGGGTGATAAAGGCTGTTTTTAGTGTGACAGTTCATGAAACCTGGATTATGGTCTTTTAATAATCACTTGGTTTTAAGGGGAATCTCATTCTGTTGGCTTTGTAAAGAACATTTGGGTCTTTTATTTACGTGACTAGGGCAGTATCTAGTACAACGTACAAAGAGTAACATGGAGACTACCATCAGGTATTATGTATGTGCCCAAGAAACCTTAATATTTCAGTTGTTTCTACTGGCCAAACTAATATTTTTAATCATGTTTTAG
Seq C2 exon
ATCTTCAACTTCCTATTTGCCTGCCATCAAAAGAAGAGGCTAGCATTCTCTATACTGACTGCTGGGTAATTGGATGGGGTTACAGGAAGGAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013571:ENSGALT00000037595:11
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(25.5=100)
A:
NA
C2:
PF0008921=Trypsin=FE(13.9=100)
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:
CCAACATTTGGCGTGTTTATGCT
R:
CTCTTTCCTTCCTGTAACCCCA
Band lengths:
261-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]