GgaINT0112115 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:80933983-80934868:-
Coord C1 exon
chr1:80934827-80934868
Coord A exon
chr1:80934298-80934826
Coord C2 exon
chr1:80933983-80934297
Length
529 bp
Sequences
Splice sites
5' ss Seq
ACAGTATGA
5' ss Score
2.27
3' ss Seq
GTCCTTTATTATTCCTACAGGCT
3' ss Score
8.34
Exon sequences
Seq C1 exon
AAGGAATATTGTGCAAGGGTGAGGCAAGGGTAGGCAGTAACA
Seq A exon
GTATGAAAAGACAGAAGAACTGCATAAGGATTGCAGTAGGACACTCCATACCATACTTAAATAATTGTGAATCTGCTGGTGGACATGGACTTTTGTGTTCAGTACCTTGTGCTGTGACATACACGAAAGCTGAGAATTGCACTGAACTGGTTACTCATTAATGCAAGAGGACGTGCTACTGGGAGAGAAAGTGCAACTAGTGGCTCCTACTCTATGTTTCTCAAGCACATCAAAATCAAGACAGTAATTTAAAGATCCTACAAAGTAGCAACAGCATTTTGGGGGAAGAAGAGAACAAGGTGGAGGACGAGAGAAGGAAATTCAAGAGTTAAAAGGCTTTCGGTCACATAGTACAGGCTACAGAATGGATGATAATTGTTTCAGCGTTGGCTTATGTGCTTCCTGGTCTACCTCTCTACCCAGTAACCTGGGACACAGAAAGTGTAATAAACCAGATCTCTTTTACAATTTTCAATGCAATAGCATTAAATAATAATACGAATGCTTAAGTCCTTTATTATTCCTACAG
Seq C2 exon
GCTATGGTGGATACAGATTGTCAAATGGCAGTACCACATGTTCAGGTAGAGTTGAGCTTCTTCATGGAGGATCATGGGGAACACTCTGTGACTACTTGTGGAATTTTTCAGCTGCCAATGATCTCTGCCAGCATCTAGACTGTGGAGTTGCACTATCAATACCAGATGGACAGTCCTTTGGAAAAGGAAATGGGTCTTTCTGGAATGGTACATTCAGCTGTAAGAAGAATGGCTCATACTCAAGAGACTGTTCTGTGAGTGTCCTAGATCAGAGTGAATGCCCTGCTGGAAATGATGCTCGTGTGATATGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014720:ENSGALT00000023738:3
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:
PF0053013=SRCR=PD(11.6=73.3)
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5)
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:
ATATTGTGCAAGGGTGAGGCA
R:
CACACGAGCATCATTTCCAGC
Band lengths:
342-871
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]