GgaINT0128789 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:4550116-4550817:+
Coord C1 exon
chr18:4550116-4550239
Coord A exon
chr18:4550240-4550691
Coord C2 exon
chr18:4550692-4550817
Length
452 bp
Sequences
Splice sites
5' ss Seq
ATGGTAACA
5' ss Score
4.87
3' ss Seq
CTTTACTTTCATTTGCGCAGAAA
3' ss Score
7.73
Exon sequences
Seq C1 exon
CATCCAGCAGCTCCATGAACGTGTGACGCAGCTGTGTGCAGAGTACCGGGACCTCTATGAGAAACTGAACGTCCCCGATATCGGGCCCAGGGTGGACTGGACAAAGATCTTGGACCAAAAGATG
Seq A exon
GTAACAGCAGCTGCTTTTCACATGTACCCCCCAAATCCTTCAAGGTCGGATAATGCCCACGGGGCTCCGCCAGCCATCGTATGCTCAGCAGCATGCAGGGATGTTATGGGTTTGGTGGTGGAGCTAACTCAAGTGGTCTGGATAGGAGAACTCTCCTTCCAGATCTTAAAACCCATTGGAGGATCCTCTGGATCGACCCATTCAGATTAAGAGCAAATAGAAAGGGATTAAGTAGAGATGCCATGATAGAAGGATAGGGAAGGTGGTGTCTCCAAGGACTTTTAGCCCTACATCCTAGGTTGTACATCCTTGACTGCCCAATATGGCAAACACCACTGAGATCCCCTCCCTTCCTCCCAGGCTGGTATTGGATCTTTCCATAAAGATCCTGCCAGCATGCACTGTGGTTTCTCCCTGAAATATGGTATTTTGCTTTACTTTCATTTGCGCAG
Seq C2 exon
AAACAAGTCAGTGCAGGACAGTACGGCCCCGGCATGTCAGAGCTGGAGAAGCAAATAGCTGAGCACAATATCCTCCAGAAGGAGATTGAAGCCTATGGCCTTCAGATCAAGAACCTGCGCTGTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002108:ENSGALT00000003290:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PU(11.8=21.4)
A:
NA
C2:
PF0043516=Spectrin=FE(53.9=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:
CATCCAGCAGCTCCATGAACG
R:
ACAGCGCAGGTTCTTGATCTG
Band lengths:
247-699
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]