GgaINT0028626 @ galGal3
Intron Retention
Description
NA
Coordinates
chr10:22200597-22201035:+
Coord C1 exon
chr10:22200597-22200834
Coord A exon
chr10:22200835-22200919
Coord C2 exon
chr10:22200920-22201035
Length
85 bp
Sequences
Splice sites
5' ss Seq
CGGGTGGGT
5' ss Score
6.14
3' ss Seq
CACAGCCGCTGTGTTTGCAGACG
3' ss Score
6.56
Exon sequences
Seq C1 exon
CCCGGCCAATCTCCGCTCTCTCCACAGTGCATCACCAGCCACACGCGGCACCTGAAGATCAACTCGTCCCTGCAGATGCCGGACCGCGTGCTGAACTTCGTCAAAGACCACTTCCTGATGGACAGCCCGGTGCGCAGCCAGCCGCTGCTGCTGCAGAGCCGCCTGCGCTACCAGCAGATCGGCGTGCACCGCGTGCAGGGGCTGCGCGGCACCTACGACGTCCTCTTCCTGGGCACGG
Seq A exon
GTGGGTGCAGCCCGGGGGCTGGGCGGCACCGGGGATGGGCGCTTTGAGCCCCCAGCCCTGCTCAGCACAGCCGCTGTGTTTGCAG
Seq C2 exon
ACGATGGCCGCTTGCACAAGGCAGTGCGTGTGAACCACCGGGTGCACATCATCGAGGAGATCCGCCTTTTCCCCACTGGGCAGCCCATCCTGCAGTTGCTGCTGGACCACGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008297:ENSGALT00000013511:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(66.7=97.5)
A:
NA
C2:
PF0140314=Sema=FE(32.5=100)
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:
GACCACTTCCTGATGGACAGC
R:
TTCACACGCACTGCCTTGTG
Band lengths:
167-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]