GgaINT1000004 @ galGal4
Intron Retention
Description
chymotrypsinogen 2-like precursor [Source:RefSeq peptide;Acc:NP_001264565]
Coordinates
chr11:1960632-1960900:-
Coord C1 exon
chr11:1960846-1960900
Coord A exon
chr11:1960736-1960845
Coord C2 exon
chr11:1960632-1960735
Length
110 bp
Sequences
Splice sites
5' ss Seq
GTGCCACCC
5' ss Score
-13.72
3' ss Seq
CGGTTGTCCCCGTCCCGCAGGCT
3' ss Score
10.08
Exon sequences
Seq C1 exon
GCAATGGCTCTGCTGTGGCTGCTGGGCTGCCTGGTGCTGGCGGGCTCTGCCCGTG
Seq A exon
CCACCCGCTCTTTGCCGAGTGCGTGGGGCAGGGCACGGAGCCGGGGGGGTGCGGGGTTTGGGGTGCGAGGATGAGGTGGCCGAGGTCCCACGGTTGTCCCCGTCCCGCAG
Seq C2 exon
GCTGCGGTGTGCCCGCCATCACGCCCGTCATCCGTGGCTACAACCGCATCGTGAACGGGGAGCCGGCGGTGCCCGGGTCCTGGCCCTGGCAGGTGTCCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000038:ENSGALT00000000051:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(8.1=51.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATGGCTCTGCTGTGGCTG
R:
GACACCTGCCAGGGCCAG
Band lengths:
151-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]