GgaINT0132144 @ galGal3
Intron Retention
Description
NA
Coordinates
chr19:308106-308814:-
Coord C1 exon
chr19:308732-308814
Coord A exon
chr19:308432-308731
Coord C2 exon
chr19:308106-308431
Length
300 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
AAATCTTTATTGTTCTGCAGGCC
3' ss Score
8.05
Exon sequences
Seq C1 exon
AGGCGCCATGACAGCAGCGGAAGTGGGCAGTCGGCATTTGAGCCCCTGGTCGCCAACGGTGCCCCCGCCTCTCTTATACCCAA
Seq A exon
GTAAGTGCCCATCGGGCCAAAAGCAATTGATGCTAGCTGAGGGATGAGTATAAAAGCCTGCAGGCTCTGGACAAGGTGCCCAGCAAAGGATGGTGGTGGCCATACCTCGTGGCATCACCCAGCCTTAGAGCTGTGCTGAGTGGGTGCAGGCTGGGGGCCACGGGGCTGCACTGCTGCGGGGACCTCTTCCTGAGCTCTGCGCTGCAAAAAAGAGCTGCGTTGCTTCCTCGATGTGCCCTGCGATGCAAAGGCCTGTGGGTAGGCTGGTGGGGAGATGCTGAAATCTTTATTGTTCTGCAG
Seq C2 exon
GCCTGGCTCTCTGAAGAGAGGCCTTGCTTCGCAGTGCCCCGATGACTGCTCAAACAAGAGGTCACGCACCTCCTCCATGAGCTCCCTCAACAATACGTACACAAGTGGAATCCCCAGCTCCCTGCGCAATGCCATCGCCAGCTCCTACAGCTCCAGCCGGGGCCTCACGCAGGTAGGAAGCACTCCTGAGGGCACCACTGCAGCCGTGCACAGCACACAGCAGCTCGACCCTTTGGGACCACCACGTGACTCAAACCCCACAGCAGCTGTGGGGCGAGAAGGTGTCACTGGAGTGACAAGATCCAGGGAAAAGGAAGGAGATAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021694:ENSGALT00000001368:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF152291=POM121=PU(12.8=96.4)
A:
NA
C2:
PF152291=POM121=FE(51.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGACAGCAGCGGAAGTGG
R:
CTGCTGTGGGGTTTGAGTCAC
Band lengths:
343-643
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]