GgaINT0060218 @ galGal3
Intron Retention
Gene
ENSGALG00000009282 | C14orf43
Description
NA
Coordinates
chr5:28317999-28318588:+
Coord C1 exon
chr5:28317999-28318172
Coord A exon
chr5:28318173-28318465
Coord C2 exon
chr5:28318466-28318588
Length
293 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
ACGTTTTTCTTTCTCCAAAGGCC
3' ss Score
10.59
Exon sequences
Seq C1 exon
AGTTCCCATAGGTTTGCACGTGTGCTTCCTCTCAGAAGGGACTTTTTCAGTGAAGAACAGGGGCACTTGGAAGAGGAAGAAGAGGAGGCAGAAGAGGCAGAGGAAGGGTTGGATAACAGAAAGAAGAGCACACTCCTTTTCAAAGATGAACAGACACTACAAGATGATTTAATA
Seq A exon
GTAAGTGCTGCATTATGCATGTTGTGTTCTTTATACTATCTTCACTCTGCAAGTAGTTTAGAAAATACCAGGTGAACAGTTAAAGATGTAAAAGTTTTTGCCTTCTTCCAGAGCAAGGGCTGGGCTGAAGTAGCTTAGAGTGTTCCTGGTAACAAGACTATGTGCTGTTCTGGAAGAACAGGGATGAGTAAGGCAAGGAAACCCAACTTAATTATTTGTAGTTGATGTACACGTAGGATCACAGTGAGAAGTGGATTTTGGTTTGCTTGCTTTACGTTTTTCTTTCTCCAAAG
Seq C2 exon
GCCAGTGATGCCAATATAAGGAGTCGAGAGGCAACTGTTACCGGCAGAATTGGAAGAAGGCCGAGGGAGACGACCATGAAGCCTCGAAAGCTTATTCCTGCTCCAGTGCAGAGGAGGCGGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009282:ENSGALT00000015102:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.267 A=NA C2=0.854
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGTTCCCATAGGTTTGCACGT
R:
CGCCTCCTCTGCACTGGAG
Band lengths:
293-586
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]