GgaINT0129163 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7921592-7922021:-
Coord C1 exon
chr18:7921946-7922021
Coord A exon
chr18:7921687-7921945
Coord C2 exon
chr18:7921592-7921686
Length
259 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTT
5' ss Score
4.72
3' ss Seq
AACCCCTCTCCCTACCATAGCTG
3' ss Score
7.28
Exon sequences
Seq C1 exon
AATAGTGAATGCTCTGCAGCTTCAAGACTATTTAAAAAAGCCAACCAGAAAGCTTCCTGCTGGGATAACCAGAAAG
Seq A exon
GTGCTTTTTTTTTTTTTTCTTTTTCCTATAATGAGCACTGTAATGTTCATAGCATGAATGAAAAATGCCCTCCGGGAGCAGTGGGGCCTACCTGTGCTCCCACCCACCCGGGAGAGCATCACATCACACCTTCCGAGTCCCTGTCTCCTATCAATCAAAAGTTTGATGTTTGTAAAGACTGCAATGCTGCCTGCAGCTCCTTGAAGACACAGTGCTGGGGCTGCAGAAGGTCTGACCCCAACCCCTCTCCCTACCATAG
Seq C2 exon
CTGTGCTTTGCTGTGTGCATGCTGGGCAACCCCTCGGTCCTGCTGCTGGATGAGCCATCGACTGGCATGGACCCCAATGGACAGCGCTGCATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:32
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=0.031
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(17.0=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(13.6=62.5)
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:
GCTCTGCAGCTTCAAGACTAT
R:
CAAATGCAGCGCTGTCCATTG
Band lengths:
161-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]