GgaINT0043261 @ galGal3
Intron Retention
Description
NA
Coordinates
chr6:32870325-32870916:+
Coord C1 exon
chr6:32870325-32870478
Coord A exon
chr6:32870479-32870707
Coord C2 exon
chr6:32870708-32870916
Length
229 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
3' ss Seq
TATTCATGTTCCTTTTTCAGTTT
3' ss Score
10.43
Exon sequences
Seq C1 exon
CGCGAAAATATTTTTGCGGTAGCTTCCTTTCAAATTCATCTGGAACAATTCAGAGTCCTTTTTATCCTTCGAATTATCCAGATAATGCAGATTGCTTGTGGGAAATACAAGTAATGAACAATTATCGCATTATGCTCACATTTGGAAGTATTCG
Seq A exon
GTAAGTAAATTACTTGTTTCCTGGGTAGTAAGTGGGCCCAAAATCTCAACTTCAAACCGCAGTTCTCAAACGTTTTCCCAGTACTTAAATGTGTTATAAATAGTACCTTGAAATTGTGTCAGTGCAGTATCTTAGTTTTTTGTTTATTCAGCATTTAAAATACTGAACTTTACCAAATGTGTTTTACCCAATATTCATGTTTTACCTTGTATTCATGTTCCTTTTTCAG
Seq C2 exon
TTTGCAAGGTGGATGCCAGTATGACTATATTGAGATCTATGATGGTCCACCAAGTACTTCTCCTCTGCTTGGAAAAATTTGTTCTGGTTATAATATCATGTACACATCCTCCTCAAATATGATGACCGTCAGATTTCGCAGTGACTCTAGATATTCAAACAGAGGGTTTTATGCTGATTATCACTCCTTTCCAGCAGATCAGAACACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023424:ENSGALT00000038697:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(17.6=92.9)
A:
NA
C2:
PF0043115=CUB=PD(81.1=84.5)
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:
GCGAAAATATTTTTGCGGTAGCT
R:
GTCACTGCGAAATCTGACGGT
Band lengths:
298-527
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]