GgaINT0035675 @ galGal3
Intron Retention
Gene
ENSGALG00000002369 | F13B
Description
NA
Coordinates
chr8:2659066-2659914:+
Coord C1 exon
chr8:2659066-2659266
Coord A exon
chr8:2659267-2659728
Coord C2 exon
chr8:2659729-2659914
Length
462 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
AACTGTCTCTTTTCATTTAGAAA
3' ss Score
7.94
Exon sequences
Seq C1 exon
ATAAACTTTGTGATTTGCCGCATGTAGAAAATGGAAGGATTGCCCCATATTATTACAGTTTCAAAGGTTACTATTTCCCTATGCGTAAAGGAAAAAGCCTTTCCTATTCTTGTGTGGCTGGTTATACAACTGAAACCGGGACTCAGGATGGAAGAATAACTTGTATGGCGAAAGGATGGTCTCCGGTGCCACGATGCTACA
Seq A exon
GTGAGTTAGCTTCTTCATTTCATTATCGCCTCTAGCAGAAAGCTATTTGAGCTCAATTTCCTTAAGCACACGAGGACAAAAGGTGTGGAATAGTAGGGATAAAAATGTGTAAGTTAGGTCGAGGTGAAATCCATTATGCATATTCACACCTTGAATTGTTTTACGCTAGTATATGTAAAACTTACCTCATATGCTTTTAAAGAATTTCAAGAAAGCTGCCTGGCTTAACTTAATTTGGGAAAAATAATTGACATTTTAGTCACAGGTGTGCATCTGAGCCTCCTCAGCTCCAGATTGACATATTCCACAGTACGACTGTCTGTTCAACGACTGAGTTAGCATTTCAATAAAATGAGAAAATGAAATGGGACGGAGATAATTTGAAAACCCCACTTTCTTGTCTATCAGAGGAAATGTTACATTAATTATTTCTTCCTAAGCAAACTGTCTCTTTTCATTTAG
Seq C2 exon
AAAAATGTAATAAGCCTCTTCTGGAACATGGCGTGTTTTACGGTACAGAAATGTACTTCAACATACACGAGAAACTACAATACAAGTGTAACCAAGGGTACCACGCTCCCAGTGGCGGTACCGAAGATACGGTACAATGTCAGTCAGATGGATGGTCTTCCCAGGCAAGCTGTACTAAGACAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002369:ENSGALT00000003734:2
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:
PF0008415=Sushi=WD(100=92.6)
A:
NA
C2:
PF0008415=Sushi=WD(100=88.9)
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:
AGAAAATGGAAGGATTGCCCCA
R:
GTACAGCTTGCCTGGGAAGAC
Band lengths:
351-813
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]