GgaINT0129144 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7931348-7931867:-
Coord C1 exon
chr18:7931748-7931867
Coord A exon
chr18:7931487-7931747
Coord C2 exon
chr18:7931348-7931486
Length
261 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TGATCTCATCCCATGTGCAGGTG
3' ss Score
8.85
Exon sequences
Seq C1 exon
GTGCAAAACATTTTGGAACTGCTGGATATCAGTAGTGTGCAAGACACTCAAGCTGAGAAACTGAGTGGTGGGCAAAAAAGGAAGTTATCCATTGGGATAGCCATGCTTGGGAACCCACAG
Seq A exon
GTAAAGCAGCTCTGTAACATACTGAATATTCAGTAATTTAACATGGCCATCATTATTCCAGAAAGATGGTAAATTATTTACCTTAATTTTGCACGTCTAGTTTAAAGCAGAGTCCCCTGAGCAGTGCCCGGAGTGGTTGCTCCTGCACACCAGATGGCCTGGCTCTTGCCTCCAGGACCTGAGGCTCTCAGGGAACACCAACCCCACAAGCTGTGCAACCATTCCTTCAGTGGGGAACATCTGATCTCATCCCATGTGCAG
Seq C2 exon
GTGCTGCTCCTGGATGAGCCAACGGCAGGGCTGGATCCTCTTTCCCGGCACCATGTGTGGAACCTCCTTAAGGAGCACAGAGCTGGCCGGGTGATCCTCTTCAGCACCCAGTTCATGGATGAGGCCGACATCCTTGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:13
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:
PF0000522=ABC_tran=FE(26.5=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(5.4=17.0)
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:
GCAAAACATTTTGGAACTGCTGG
R:
GCAAGGATGTCGGCCTCATC
Band lengths:
255-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]