GgaINT1001090 @ galGal4
Intron Retention
Description
NA
Coordinates
chr5:14360427-14361338:-
Coord C1 exon
chr5:14361200-14361338
Coord A exon
chr5:14360538-14361199
Coord C2 exon
chr5:14360427-14360537
Length
662 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TTATTTCCCTGTGATTGTAGAGT
3' ss Score
5.77
Exon sequences
Seq C1 exon
CACCTGTGATTCAGGCAGATGGACATGCAAAGATTTACCCTGTCCAGGCACATGTTCAGTAGAAGGAGGTTCCCATATTAAGACCTTTGATGGGAAGAAATACACCTTCCATGGAGACTGTTACTACGTGTTGGCCAAG
Seq A exon
GTACTGTATACTGTAGAGCTTTTCTCTCACACATTAAATGTGTCTATGCACTCATTTTTAATAGGTGTGAATTGTTCTGTTATTCTACTTCCATGGGATGTGGGAAGCAGAAATGTTAAAAGCCTCATTGGAAAATTCAGGATGGGCTATTATTGCCCTGTGGGAGGACTTGGGCACTTACTACAATGGATGTCTTACTTAGTCACTTAGCAGACTACATATACTGTCATTTCACAGTGGAGTCTTTCATGTATATGAAGAAGCATGCTGACTGCATGGAAGAGTAGATGACAAAAATTCTGCAGTTCTCAGGATTAGAATGTCTCAGCCAGATCTGTTATAGCTATTTCTGTGTCAATGTGTCAAAGTGAACTAGGGAAAAGAGCTTGGCAGTTATTTCATTCATTAGTCCCTAAAATACCTGTTGCATGTTTTCCAAAGATTTTGTTGAACTGGAAACTGTACTGTACCATTCCTTTTTTTTTTTTTTTTTTTGAGGGAGAGAGAGTTCATCTTACGAAACTAGTGCTAAAACTGAGGTTTTAATAGCTAAGTTCTATAGCAATTGCTATAATCTATGACTTCAGTCTTAATTTTGGAAATTATCTTGTGTGAGAGATTTTTGATTGGACTAATGGATATTTATTTCCCTGTGATTGTAG
Seq C2 exon
AGTGCTGTGAATGATACTCATGCCCTCCTGGCAGAGCTGGCTCCTTGTGGCTCCTCAGATGGACAGACCTGTTTGAAGACTGTTGTGTTGTTAGTAGATGACAAAAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006744:ENSGALT00000010869:8
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:
PF0009313=VWC=PD(65.6=85.1),PF0009420=VWD=PU(18.2=59.6)
A:
NA
C2:
PF0009420=VWD=FE(23.4=100)
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:
TGTGATTCAGGCAGATGGACA
R:
TGTCATCTACTAACAACACAACAGT
Band lengths:
238-900
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]