GgaINT0002274 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:54064165-54064613:-
Coord C1 exon
chrUn_random:54064415-54064613
Coord A exon
chrUn_random:54064299-54064414
Coord C2 exon
chrUn_random:54064165-54064298
Length
116 bp
Sequences
Splice sites
5' ss Seq
ACGGTACCG
5' ss Score
7.03
3' ss Seq
TGCCCCCTGCTCGCTGACAGATG
3' ss Score
8.51
Exon sequences
Seq C1 exon
GTGCTGCCGCTGCCGCAGGTCTTCCGGAACCCCAGCTACAGCTCGCTGACCATCCGCAACGACATCACGCTGATCAAGCTGGCCACCCCAGCACAGCTGAACGCCCGCGTGGCGCCCGTCTGCCTGCCCCAGGCCACCGACGACTTCCCCGGGGGCCTGACCTGCGTCACCACGGGCTGGGGGCTCCTCAACTCCAACG
Seq A exon
GTACCGCGGCCGCGGCCCCATCCCCGTCCTTACCCCCGGCCCAGGGCCGAGCCGGCACTGACGGATGCCCCCGGCACTGACGGATGCCCCCTGCTCTGCCCCCTGCTCGCTGACAG
Seq C2 exon
ATGAGAACACGCCGGCCATCCTGCAGCAAGCGGCCCTTCCCCTGCTCACCAACGCGCAGTGCAAGCAGTACTGGGGCTTCCGCATCTACGACGTGATGGTGTGCGCCGGGGCCGACGGATCCTCCTCCTGCATG
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:
PF0008921=Trypsin=PU(42.0=98.5)
A:
NA
C2:
PF0008921=Trypsin=FE(28.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAACGACATCACGCTGATCA
R:
GCACACCATCACGTCGTAGAT
Band lengths:
248-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]