GgaINT0125715 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:8579137-8579434:+
Coord C1 exon
chr17:8579137-8579268
Coord A exon
chr17:8579269-8579360
Coord C2 exon
chr17:8579361-8579434
Length
92 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGGTTTCTCTTCTCCTGTAGCTG
3' ss Score
9.75
Exon sequences
Seq C1 exon
GAGGAGGACGAAGACGAGGCGGAGTGGAGCGGCAGTTACCGACCCGCGGCCGCTGAACGGGCGCACCTCACTGCGGCCTTCTGTGAGGCCGGGGGGGCGGGCGCTGCTCCGCGGCGGCGCAGCTACGAGGAG
Seq A exon
GTGAGCGGCGCCCCGACAGCCCCGGCGCGATGGGTGCGGGGCCGGACCGCCCCGCTCATCTCTAACGAGGATTGGTTTCTCTTCTCCTGTAG
Seq C2 exon
CTGAAAGCAGAGAACGCCGCGTTGCGGAGGAGGATCCGCGAGCTGCAGGAGATCTCTGGGGCTCAAACAGACGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001921:ENSGALT00000002974:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.533 A=NA C2=0.160
Domain overlap (PFAM):
C1:
PF0076914=ERM=PU(7.0=40.0),PF154191=LNP1=PU(19.9=93.3),PF0026115=Tropomyosin=PU(1.8=6.7)
A:
NA
C2:
PF0076914=ERM=FE(14.0=100),PF154191=LNP1=FE(17.0=100),PF0026115=Tropomyosin=FE(21.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGGAGCGGCAGTTACC
R:
TTGAGCCCCAGAGATCTCCTG
Band lengths:
177-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]