GgaINT0081228 @ galGal3
Intron Retention
Gene
ENSGALG00000010583 | VIT
Description
NA
Coordinates
chr3:33397690-33398122:-
Coord C1 exon
chr3:33398019-33398122
Coord A exon
chr3:33397917-33398018
Coord C2 exon
chr3:33397690-33397916
Length
102 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
AACCTCCTCTTTCATTTCAGGAA
3' ss Score
10.64
Exon sequences
Seq C1 exon
TGATGACCCTTCCACAGAATTTAACCTGAAAACATACGCCAGCCCCAAGGAGCTAAGAAATGCCATTGAGAAAATCCCTCAGAAAGGCGGACTTTCCAACGTTG
Seq A exon
GTAGGTTACAGGCTGCTTGCACACCCTCAGCATAGGGGTGACTCGAGAGCCTGGAGTGCTGCCAGCCCTGTAACTTATCCTCAACCTCCTCTTTCATTTCAG
Seq C2 exon
GAAAGGCGCTTTCATTTGTCAACAAAAACTTCTTCTCGGATGCTAATGGAAACAGAGGTGGAGCGCCCAATGTGGTGGTGGTGATGGTGGATGGGTGGCCAACCGACAGGGTGGAGGAGGCCTCCAGGCTGGCCAGGGAATCAGGGATCAACATTTTCTTTGTCACTATTGAAGCAGCTGCTCAAAATGAGAAGCAGAATGTTATTGAGCCAAACTTTGTGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010583:ENSGALT00000017224:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF115933=Med3=FE(12.1=100),PF0009223=VWA=FE(21.1=100)
A:
NA
C2:
PF115933=Med3=PD(12.1=46.1),PF0009223=VWA=FE(45.2=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:
CCCCAAGGAGCTAAGAAATGCC
R:
GCTTCTCATTTTGAGCAGCTGC
Band lengths:
257-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]