GgaINT0105045 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79464011-79464502:-
Coord C1 exon
chr1:79464378-79464502
Coord A exon
chr1:79464102-79464377
Coord C2 exon
chr1:79464011-79464101
Length
276 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
CAGAACTTTTCTCATTTCAGTTA
3' ss Score
6.64
Exon sequences
Seq C1 exon
ACAACCCTGAAATACAACATCCACTTACCGAAGAAAGCTGCTGGATTTTTTCTCTCTGTAGAGCCAGCCAATGTGTCCTGTACCAGCAACTTCCCACTGAAGTTTGACCTTGTCTTCTCTGCCAG
Seq A exon
GTAACTTCCTTTTACTGATCTACCCTTTTGCATTCTCAGTTTGAAGCATCTCAGAAGGATTTAAGTATAGGCAGTTAACTGCTACTGTGCAGGAAGACAAACAGGACCATATCCTGAAATCCTTCATTACTGATTTTTTTCAATATGTTATACATCACTGGGAAACCAGGACCATCCAATAAAGAGATTATCTGAGTTGTCTATGAGTTGGAGCTGAAAATGTCACTCACTGGTCTGCTCTCCAACTGCAGATTAACAGAACTTTTCTCATTTCAG
Seq C2 exon
TTACACGGGAAATCGTAATGTCTCCAACATGGCTATTATTGATGTGAAGATGCTCTCAGGATTTATTTCTGATAGATCTTCCCTGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:30
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:
NO
A:
NA
C2:
PF076779=A2M_recep=PU(24.7=71.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ACAACCCTGAAATACAACATCCACT
R:
CTTTTTCAGGGAAGATCTATCAGAAA
Band lengths:
216-492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]