GgaINT0054939 @ galGal4
Intron Retention
Description
NA
Coordinates
chr5:14171772-14172367:-
Coord C1 exon
chr5:14172277-14172367
Coord A exon
chr5:14171885-14172276
Coord C2 exon
chr5:14171772-14171884
Length
392 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
ACTTTGTCTACTTTATACAGATG
3' ss Score
7.14
Exon sequences
Seq C1 exon
GTGGAACTAGATAAGAAATATGCCAATCAAACTTGTGGACTCTGTGGGGACTTCAATGGAATTCCAACTAACAACGAGTTTATTTCACAGA
Seq A exon
GTAAGTAATAAAAAGCATTATTACATCTTGGAACTTTTTTCGTCATTTTAGCAATATAGGATGTGGGTTATATTAACTGCAAAACTAATGATACATCTTCCAGTCGGTATTTTTATGATGTCAGTTTTAACATGTAAGAGTCACAGCTTTCAGATGCATTCAGGTGTTTCCACCACTGTTAGATCTTTTAAAATCATATAACCTTCTACTTGTTTCAGTTGTTAGGCTCCAGTCCCTTATATGCCTTCTTCATCTCCTTTTGCCTTTTGTATTATAGTGAGATTATTTGGTAATCACTGTTTTTAATGGGTAGTGTCTCAAAAGAAAACACCTCAGTGCAGAAGCTAGTAAAGCAGTAAATATCATTCTAATACTTTGTCTACTTTATACAG
Seq C2 exon
ATGCAAAACTGACTGCTGTACAGTTTGGGAATAGGCAGAAAATAGATGGACCCACAGAGCAGTGTGATGATCCTATCCCTTCTGCTGTTCTGATGAACTGCTCATCTGAATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:5
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=FE(20.3=100)
A:
NA
C2:
PF0009420=VWD=PD(0.7=2.6),PF087426=C8=PU(3.9=7.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAACTAGATAAGAAATATGCCAA
R:
TCATCAGAACAGCAGAAGGGA
Band lengths:
187-579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]