GgaINT0054958 @ galGal4
Intron Retention
Description
NA
Coordinates
chr5:14158458-14159424:-
Coord C1 exon
chr5:14159185-14159424
Coord A exon
chr5:14158615-14159184
Coord C2 exon
chr5:14158458-14158614
Length
570 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TCAAATGTTTCCTCCAACAGGTT
3' ss Score
10.29
Exon sequences
Seq C1 exon
GGACATGTCTGTGGCCTTTGTGGAAACTATGATGGCAATGGAAACAATGACTTCACTACGCGCAGTCAGTCTGTGGTAGGAAATGTGCTGGAATTTGCTAATAGCTGGAAAGTGTCTTCTACTTGCCCAAATGCCAATCAAACCAAAGATCCATGCACCGCAAACCCATACAGGAAATCCTGGGCACAGAAGCAATGCAGCATAATTACCAGTGAAGTATTTGCAAAGTGTCACTCCCAG
Seq A exon
GTATGATAAAACTTCAGTCTGAAGTTCTTTTAAGCCAGAGATTACATCAATTCTTATGTGGGGTAGCTGAAAACACTAGGATTTGGACTAAGTCACAAATAAAAAAGTCAGACCATGCTCTAGGGAGATTGAGTAGAAAGGATATGCACCTCCATTCCCTCATGTTGTGCCATTTGCTTATGCAACACAACTTTTGTGTTATAGAAGGGACAGTTACAGATAAATAGCAGGATACATTTTAATTGCCATGGTGTCATTTTGTATTAATATAAATATCAGCTACATGATATCTACAATTGTGTGCTAGCATGTAGTAATGTAACAGTACTCCTCCTGCAATTGTGTCTTCAACACCAAAATGTTCTTATAATTATGACTTACTACTAATAGCTGTCTTCAACATTTTTCTCTTAATTTTTCAAAATATTATCATAATTTCTTCATTTTTTTTATCTTTCTCAAATATACAGAGTAGCCAATTTCAGATATTTTCTAAGTCTTTTTTAGTACAGAAAACCTTTCAAAAGTGTACAAGTACAGGAAACAAAACTCAAATGTTTCCTCCAACAG
Seq C2 exon
GTTGAACCAAATGAATATTATCAAGCATGTGTGGATGATGCTTGTGCTTGTGATACTGGAGGAGACTGTGAATGTTTCTGTACAGCAGTAGCTGCCTATGCTCAAGCGTGCAATGAGCTGGACATCTGCATTTCATGGAGAACTCCATCCATTTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:24
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:
PF0009420=VWD=PD(15.2=28.8),PF087426=C8=PU(28.0=26.2)
A:
NA
C2:
PF087426=C8=FE(69.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGTCTGTGGCCTTTGTGG
R:
CGCTTGAGCATAGGCAGCTAC
Band lengths:
346-916
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]