GgaINT1000009 @ galGal4
Intron Retention
Description
chymotrypsinogen 2-like precursor [Source:RefSeq peptide;Acc:NP_001264565]
Coordinates
chr11:1959124-1959542:-
Coord C1 exon
chr11:1959409-1959542
Coord A exon
chr11:1959308-1959408
Coord C2 exon
chr11:1959124-1959307
Length
101 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
CCTCACCCCTCTGCCCGCAGGGC
3' ss Score
11.88
Exon sequences
Seq C1 exon
ATGAGAACACGCCGGCCATCCTGCAGCAAGCGGCCCTTCCCCTGCTCACCAACGCGCAGTGCAAGCAGTACTGGGGCTTCCGCATCTACGACGTGATGGTGTGCGCCGGGGCCGACGGATCCTCCTCCTGCATG
Seq A exon
GTGGGTGCCCCGTGCCCCAAAGTGCGGCCCCCGAGCCCCCGCCTCCCCGTGCCCGCGGCCCCCCCGGCTCCGTACCCGCATCCTCACCCCTCTGCCCGCAG
Seq C2 exon
GGCGACTCCGGGGGCCCGCTGGTGTGCCAGAAGGACGGCGCCTGGACGCTGGTGGGCATCGTCTCGTGGGGCAGCAGCACCTGCTCCACCTCTACGCCTGGTGTGTACGCCCGTGTCACCAAGCTCCGCGAATGGATCGACTCCGTGCTGGCGGCCAACTGAGGCCCCAAATAAAGTTCCACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000038:ENSGALT00000000051:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.7=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.2=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACTGGGGCTTCCGCATCTAC
R:
GTGGAACTTTATTTGGGGCCTCA
Band lengths:
248-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]