GgaINT0124296 @ galGal3
Intron Retention
Description
NA
Coordinates
chr17:882062-882626:-
Coord C1 exon
chr17:882516-882626
Coord A exon
chr17:882164-882515
Coord C2 exon
chr17:882062-882163
Length
352 bp
Sequences
Splice sites
5' ss Seq
ACAGTGCGT
5' ss Score
5.66
3' ss Seq
AACTCCTTTCTTGCCTTCAGGCA
3' ss Score
8.91
Exon sequences
Seq C1 exon
AGGAAGCCGAGAAAACGGTGGAGGTGCTGGACACGGACTACAAGAGCTATGCAGTGATCTTTGCAACCAGGGTGAAGGATGGGAGGACCTTGCACATGATGAGGCTCTACA
Seq A exon
GTGCGTGGCCAAGCTGGGGCTGTGGGCATGAGGGGCAAGGGGGGATGGGACATGAAGGCACCTTGTGCTGCAACTGCCACTGGCCAGTTCTGGTTTAGGAGGCAGATCAAGGCAGGGGGAAGTGGAGGGAGCAGCAGTTTGGGGTTTGGTCTCAGATTTCTGCACTGTGCCAGGTATCCACAGCCTCAGTAAGTCATCTGGTGAAACAGAGCTAAGAGCTGGGGTCCTGCTGCAAGGAGAGGTCAGAAAGGGTGGGGATGGGATCCAAGAGACACTGGGCTGCCTGGGGACCCTGGTACCAGGGCATCACCTGTCCCACCCGGCCAGTGGCTAACTCCTTTCTTGCCTTCAG
Seq C2 exon
GCAGAAGCCGTGAGGTGAGCCCCACAGCCATGGCAATCTTCAGGAAGCTTGCTAGGGAGCGGAACTACACGGATGAGATGGTCGCCGTGCTGCCCAGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024011:ENSGALT00000040489:5
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:
PF0006118=Lipocalin=FE(31.9=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(29.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAGAAAACGGTGGAGGTG
R:
GCGACCATCTCATCCGTGTAG
Band lengths:
190-542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]