GgaINT0105040 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79467765-79468449:-
Coord C1 exon
chr1:79468293-79468449
Coord A exon
chr1:79467846-79468292
Coord C2 exon
chr1:79467765-79467845
Length
447 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TTTTTTTTTTTTTTTTTTTGCTT
3' ss Score
2.89
Exon sequences
Seq C1 exon
GCTCACTGCCTTTGTATATAAGTCATTTGCACAAGCAAGACGGTACATCTATGTTGATGAAAATGTCCAGTCTCAAACTCTGATCTGGCTGGCAAGAAAGCAGAAGTCAGATGGCTGCTTTGAAAATGCTGAGTCACATTTCAACAATGCTTTGAAG
Seq A exon
GTAATTGAGTTCAGTGTACTTTTAAACTTCCAGTCCTGCCATTGGTATAGATTTGGATAATTTCAGCTAGACACAGACTAATCACCACACCCATACTCTCCCATTCTCTAGTGTCTCTTATAAAAGGAGAGCATGAGTATCATCTCCCATTGATGATGATGTAGAAACAAATAGAATTTTCCAAGTTAGACATCTCGGGTTTTATTTTCCACCACTGCATTTAGCCACAGGCTACACAAGCTATAATATGTTTTATTACATGTGTAAAGCTAAGAAAAAGCATGAAATAATTCTGGCTTTATCCTGACTGAGCTTTCTTCTTCTTGTGCACACAGGAAGACAGAAGTTGACTCTGATGTCTGTTCTAACTATCATCTGAACAATCACTGAAATCCTATTTTTTGCTTTCTAGGATGCCTGTACTGACTTTTTTTTTTTTTTTTTTTG
Seq C2 exon
CTTCAGGGTGGTGAAGAAGGTGAATACTCCCTTACAGCCTACATTGTGGCAGCATTGTTGGAGGCTGGACACTCTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:25
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:
PF076789=A2M_comp=FE(20.7=100)
A:
NA
C2:
PF076789=A2M_comp=FE(10.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCACTGCCTTTGTATATAAGTCA
R:
CTGAACAGAGTGTCCAGCCTC
Band lengths:
238-685
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]