GgaINT0004938 @ galGal3
Intron Retention
Gene
ENSGALG00000003215 | PEF1
Description
NA
Coordinates
chrUn_random:12597069-12597424:-
Coord C1 exon
chrUn_random:12597304-12597424
Coord A exon
chrUn_random:12597225-12597303
Coord C2 exon
chrUn_random:12597069-12597224
Length
79 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CCGGTGCCGTTTCTCCGCAGGCG
3' ss Score
11.46
Exon sequences
Seq C1 exon
GGCTATCCCGGCGCGGGCCAGGCCGGGCCCTACTCCGGAGGTCCTTACGGCGGCGGCGCGGCCCCCGGGCAGCCCTACGGAGCGCCCCCGGCGGGACCGTACGGAGGAGCCGCTCCCGGAG
Seq A exon
GTGAGCGGGGAGCGGTGCTGAGGGGGAGAAGGCCACGCGCTGGGCTGGAGCCGGAGCCGCCGGTGCCGTTTCTCCGCAG
Seq C2 exon
GCGGTGCCCCCCAGGGGGTGGACCCCGAGGCCTTCTCCTGGTTCCAGGCGGTGGACGCTGACCGCAGCGGTTACATCTCGGTGAAGGAGCTGAAACAGGCGCTGCTCAACTCCAACTGGTCGGCGTTCAACGACGAGACCTGCCTGCTGATGATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003215:ENSGALT00000005093:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.226
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.2=12.2)
A:
NA
C2:
PF134991=EF-hand_7=PU(71.4=94.3)
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:
GGACCGTACGGAGGAGCC
R:
GATCATCAGCAGGCAGGTCTC
Band lengths:
183-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]