GgaINT0128800 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:4556034-4556770:+
Coord C1 exon
chr18:4556034-4556212
Coord A exon
chr18:4556213-4556631
Coord C2 exon
chr18:4556632-4556770
Length
419 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
GTCATTTTTCCCTTCCTCAGGGC
3' ss Score
10.62
Exon sequences
Seq C1 exon
GAGACAACAAAGAAACTTGAGAGCCTGGGGGCAGCCAAGGATGCCTTGCAGAAGGAGTGTGAGACCTATCTTTCCAAAAAGCCCACCAGCACCTCAGCTTCCCAGCTCCCCGTCACGCTGAACGCCCTCAGGAGCAAATACAGCGACGTCAGCATGCTCTCCAGCCTGTACAACGAGAA
Seq A exon
GTGAGTGGGGATGAAGGGAGCAAGGCACTGCCCAGATGTACCAGCAAAGGGCATGAGAGGAAATGCACGTGGTCTATGTGGGCATGGGTTGGGGGCCGTCTAGCCCAGGGGAGATTGGATACCTTCCACCCATCATCAAAGGTATTCCTGCAGGACTTTCTGTACGTAATCTGTGGTCAGATACTGCAAAGCCGTACAAAGTCCCCATAACTGATGTGTGTCCCAGCAGTGCTTCATGCAATCAAGCACAAAGCACCTGGCTTCTGGCAGGGCTGTGAGTGCGTACTGCTTGTTCCCAGCCATGCTGCAGAAGCTTTGCTGTTAAATAAGCTTAAAAATGCGGAATTGGAGAGAAGAGGAAGAAATAAAGTGGCCCTACTATAAAGTGTAGCTAACTTTGTCATTTTTCCCTTCCTCAG
Seq C2 exon
GGCTAAGGCTGCCCTGAACCTGGAGACTCAGATTGAGAACACAGACAAGATTGTCAGCACGTTTGAGGCCAAGCTGGCTCAGGATAGCATCATTCCTGCATCTCCCAATGCCCTGCAGGACCGAGCCAATGACCTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002108:ENSGALT00000003290:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.467 A=NA C2=0.298
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(37.9=93.6)
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:
GAGACAACAAAGAAACTTGAGAGCC
R:
TTGCAGGTCATTGGCTCGG
Band lengths:
318-737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]