GgaINT0058636 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15819180-15820247:-
Coord C1 exon
chr5:15820109-15820247
Coord A exon
chr5:15819333-15820108
Coord C2 exon
chr5:15819180-15819332
Length
776 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
AGATTTTTATTTATTTTCAGCAC
3' ss Score
6.79
Exon sequences
Seq C1 exon
TACATGTAATGGAGGGAAATGGATTTGCGAAGACATATCATGTCCAGGAATATGTTCTGTAGAGGGAGGCTCACACATTTCTACATATGATAAAAAGCATTATGATGTCTATGGAGACTGCACTTACGTCCTTTCTAAG
Seq A exon
GTGAGAATCAGATATTACTTGGTCATAAAGCCTTATATGCTTGTGGAAAGGATAGGTGATCTCAATCAACATCTTTGAAACTTACATCTTTTGACGTATGTACATTAAATTGCTTCAGTTAATCCGACACTTACTGGAATGTATTCTGCCATTCAAATGATTTAATTATCATAATATTAGGATGTCATGCAACAGTAGATGGTGATTTCTAGGGAATTTCCAGTTCTGTGATACAATAAATGCTGAAGAGTACTCTCATTTTAAGGTTTTGCTCAATCTACATTCTTCAGCATGATTGTTCCAGCTGTCTTACTGGATTTTATAATTCTGCCCTATTAACTATATTTAATAGTAGTGGACCAAATGATATTCCAAGTCTGAAAAAATGCACTAGCAGTTCAAAAAAATAAAATCTTTAATAAGTAAGACTAACATTTTTTTTTTCTTGGAAGCTGAAATATAGAAAAATCAGTTCAAGTCAACTGGTGCATTTCATTTAGGTTTTGAACCATTATAAAAATGAGTTAAGAGAAATAAAGAAATAAAAAATTCATTATAATCAAAACATTTTGTTACAGTAAAGTGTAGGTGAAATTATTTCACCTTTTTGATCTGTTTCTTCTTTGCTTTCTTTTTTTCCATTTGCATAATTCAGACTAAAAAAAAAAAAAAAAAACACTCACTGTTACTGTTTCCTTGAAAAGAGAGACTTTGACAGGGACAGCTTCTGTAATTAGCCTTTCACTGAATAACTTGAGATTTTTATTTATTTTCAG
Seq C2 exon
CACTGTGAAGATGAAATATTCACCATCTTGGTAGAACTACGCAAATGTGGCATGACGAACACTGAAACGTGCTTAAAGACAGTGACCCTCAGCATGAATAAAGGACAAACGGTAAGAATGCAAAATAAGCATGAGAAAAAAACTATCAATAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023540:ENSGALT00000039116:5
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=0.078
Domain overlap (PFAM):
C1:
PF0009420=VWD=PU(17.6=59.6)
A:
NA
C2:
PF0009420=VWD=FE(31.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACATGTAATGGAGGGAAATGGA
R:
TGCTTATTTTGCATTCTTACCGT
Band lengths:
270-1046
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]