GgaINT1021198 @ galGal4
Intron Retention
Gene
ENSGALG00000003215 | PEF1
Description
penta-EF-hand domain containing 1 [Source:HGNC Symbol;Acc:HGNC:30009]
Coordinates
chr23:4920423-4920778:-
Coord C1 exon
chr23:4920658-4920778
Coord A exon
chr23:4920579-4920657
Coord C2 exon
chr23:4920423-4920578
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:ENSGALT00000005093:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.780 A=NA C2=0.057
Domain overlap (PFAM):
C1:
NO
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]