GgaINT1000007 @ galGal4
Intron Retention
Description
chymotrypsinogen 2-like precursor [Source:RefSeq peptide;Acc:NP_001264565]
Coordinates
chr11:1959659-1960374:-
Coord C1 exon
chr11:1960296-1960374
Coord A exon
chr11:1959840-1960295
Coord C2 exon
chr11:1959659-1959839
Length
456 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGG
5' ss Score
10.26
3' ss Seq
CAGTGCTGCCGCTGCCGCAGGTC
3' ss Score
4.4
Exon sequences
Seq C1 exon
GACCACCGACACCGTGGTGCTGGGCGAGTACGACCAGGAGACGGCCTCCAGTGACGTGCAGAGGTTGGGCATCGCCAAG
Seq A exon
GTACGGCCGGTGTGGGGCTGTGTGCGTGCGAGTGCCGTGCTCAGTGCCGGCAGCGCTGCGGGGATGGGTGCCCCACGTTCACGCGGTTGGGTCCCCTCGCGCTCCTCGTTCCCCTCTGTATCAGGGCTCGCATCCCCGCAGAGCCCTTCACGGTGGTGCTGGGTCCCTCTGGTCCCTTGGTAGTCCTTGGGGTTGTGTCCCGGCGCTGTCCCCGGTGCCCCAGGGATGGAGCTCTGCCCACCGGGCCCCCAGCAGTCCCCCCAGCAGCGCCAACGGGATCCCTGCCTGGGTCCCGGGGTCCCCACCAGCGCTGGCTTTGTGGTCCCCACCCGCCCTGGGGCGGCTCTGAGCGCAGTCGCTCCCGAGGTCGGCTCCCGCCCCACACGTCCCCATGCGTCCCCCAGCACGCAGTGCCCTGCTGGGGTGCGGGCGCAGTCAGTGCTGCCGCTGCCGCAG
Seq C2 exon
GTCTTCCGGAACCCCAGCTACAGCTCGCTGACCATCCGCAACGACATCACGCTGATCAAGCTGGCCACCCCAGCACAGCTGAACGCCCGCGTGGCGCCCGTCTGCCTGCCCCAGGCCACCGACGACTTCCCCGGGGGCCTGACCTGCGTCACCACGGGCTGGGGGCTCCTCAACTCCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000038:ENSGALT00000000051:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(11.7=100)
A:
NA
C2:
PF0008921=Trypsin=FE(26.9=100)
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:
GACCACCGACACCGTGGT
R:
TTGGAGTTGAGGAGCCCCC
Band lengths:
258-714
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]