GgaINT0111554 @ galGal3
Intron Retention
Gene
ENSGALG00000016138 | DSCAM
Description
NA
Coordinates
chr1:111790406-111792128:-
Coord C1 exon
chr1:111792032-111792128
Coord A exon
chr1:111790535-111792031
Coord C2 exon
chr1:111790406-111790534
Length
1497 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
GTGTATGTGTATTTACTCAGAAC
3' ss Score
5.73
Exon sequences
Seq C1 exon
ATTTTGCCAACTGTGCGTGAAGATTCTGGCTTCTTTTCCTGCCATGCCATCAATTCTTATGGGGAGGATCGTGGAATAATTCAGCTCACTGTGCAAG
Seq A exon
GTAGGAAGAGGACAACATAAGGAAAAATACACAGCTATTGTAGTACAGTAAGTGTATGCCATGCTCAGAAATCTGTTGGGGGAGGGAGGCCCTGGTTCCTAATTAAGTGTAGTCCTCATTGTCAAAGAAATGAGGAGCTGCATTAAGATTCTCAGTCTCTCATTTTCCAGCATTACAAATTAAATCAAAACGAAGGATAAGCTCCAGAGTCTTTCTAGATCTGTACAAATTAATAAGCAGAGGTTTTTTTGTTTTTTTTTTTTCTTAAATACACTAGCTGATGATCTACTAAAGATATTTAAAACTAACATCTTCAGAAGGAAGAGCAGATACATGAGGGTTACTTCTGGGGGAAGAGATTGAGGGTTGCATTGTTTTCAGAAGAACAAATGTTCTTAAAACCCCACTAAAGCAAAAACAATCTGATTTTATTTCTGAAGAAGTGTTAAACCTACTGTGTATCGACAAACAAAATATTTCAAGTTTAATCAGTAAAAATAAATTTTAATCAGTTTGTACATCAGAAGCTCTAGGAACCTATGTTGCCTGGGGCTGGGTTTCCCCTCCTGCAGGGTTTCACTCAGGCAGACAGCAGCAAATTCTGGAGCAGCTAAGGTGACAGTATTTGAGATGCAGAGCAGAGGCAGGACTTGGCCACTGGCTACTGCTTACTTCTGTGATGCTTATTCCTGTGCTTATATGGCTTTGAGCATTAATGCAGCCAGTCTCTAGAACTTGCAAATTTCTTTTCCCTCACTCTAGAGTTCATGTATCTGCAGATCTCACTGAATATTTAATCACAGGATCATAGAATATCCTAAGTTGGAAAGGACCCACAAAGGTCATCCAGTCAAACTCCTGAAGCAGCCCTCATCAGTAAATTCAGGTGGAGTTTGGGTCAGGCTCTCAATTACACCTGAGCTCCTTTACACTGCCTTGACAATTTAAAAGGACACTAGATTCAGTACAAATGCTGGTTATTTACATCCTTAATTCTATAGAGCTAGGAAGAGGCTATAGTTTAGTTAAGACTTTTAAATGCTTATTAAATTGATTGTTAATAAATTAAGACTTTAAACATACTCAAAGAGACAGAATTCTTCCTCCCTTCCCCTACCAAATTTAGTAGCTTGGTATTAATATTTCTATCACCAGCTTTTATGTAGAAACCGTAGAAGTATCTGTAAGATACAGCATGAATAGTCCAATCTGGAGCACTTTTAAGGAAATGCAGCTACATGTTGCGTATTAGAAGGTTAAACAGAAGTTAGTATTCAATATTACATCAGTGAGTCTTAGTTCAAAAGAGCCTTTTCATTCCTCTCTTGGGTATTCTTCAGTGAGTGATTAACTGGCTTGGGGTACTAATGAGTGACTAGAGAATTCAGCATGAAAGCTTACCTCCAGTAAGCCATGTCAGTGCCACGCTCATTAGTGTTATCTTGTTACGGACATGAGCTTTCCTCTGACTAAAACTGTGTATGTGTATTTACTCAG
Seq C2 exon
AACCCCCTGACCCTCCTGAGATAGAAATCCGAGAGGTGAGAGCACGCAGCATTGCCCTCAGATGGACCATGGGATTTGATGGAAACAGCCCTATCACCGGCTATGATATTGAATGCAAGAACAAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016138:ENSGALT00000025993:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.318
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(31.6=90.9)
A:
NA
C2:
PF0004116=fn3=PU(47.1=93.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCCAACTGTGCGTGAAGAT
R:
TGACTTGTTCTTGCATTCAATATCA
Band lengths:
222-1719
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]