GgaINT0008335 @ galGal3
Intron Retention
Gene
ENSGALG00000003743 | VPS37B
Description
NA
Coordinates
chr15:5289525-5290419:+
Coord C1 exon
chr15:5289525-5289696
Coord A exon
chr15:5289697-5290336
Coord C2 exon
chr15:5290337-5290419
Length
640 bp
Sequences
Splice sites
5' ss Seq
TAGGTAATA
5' ss Score
6.84
3' ss Seq
TTCTTTTCATGCCATTGCAGACA
3' ss Score
8.27
Exon sequences
Seq C1 exon
GCCCAAAATGTTCAGCACAGCAAGGACATGACACTTGCCAGCAACCGCAGTCTGGCAGAAGGCAATCTTCTGTACCAGCCAAAGTTGGAGTCTTTGAAAGCAACTTTGACTCAGAAATATCAAGAGCTGCAAGTTCTTTTTGAAGCATACCAGATAAAGAAAACAAAATTAG
Seq A exon
GTAATATTTTCTGTTGATCACGATGATTGGCTGTTTTATAAGTGAATGTAAAAGCTGTTGTGTGCTTTGTTATTTTTGCATGCTCTCAATTTTATCTTTGTAAGTTAGGGTAACAAATGAAATGCCATTCTCACATAGCTCAGAGCTAGATCATTGCTAAGTATCTGTTACACCCAGAGACACACACTGTGGATTCTTTCTGTTCCTGATGTGGTTACCTAGCTGTTGTTCTCTAAACAGCTGAATTTGTCCACCTTGATAAAAAGCAAAACATAATTTGAATTCTCTGTGATTAATCATAAATCAAACATTCTTGTATTTAAAGTTCTCATTCCATACTGAATTATGAAGTATTGTGCATCTGATACTGCACTTCTGGGAGTGCTTTCTTGCATTATTATAAACATAAAATTAGAATTAAATCATAGCTTGTAGCACCATGCCTATATTCTTAAACTACTTAAATGTATTTTCTCACTGTAGATCATCCTGTCTAAAACATTAGAGTATACTAAATATTAGAGTATGTGTTTGTACATATGCACCGTAGAAGATTTTTATGCTGGCTGACGCTTTATAGCTTCATTTAGAAGTTGTGTACAAACAGCTGTCGTTTATTTTTCTTTTCATGCCATTGCAG
Seq C2 exon
ACAGACAATCCAGTAATGCCTCACTGGAGACACTGCTAGCACTCCTTCAGACTGAGGGGGCTAAGATTGAGGAAGACACGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003743:ENSGALT00000005939:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.286
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(38.0=100)
A:
NA
C2:
PF072008=Mod_r=FE(18.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCAAAATGTTCAGCACAGC
R:
TCCGTGTCTTCCTCAATCTTAGC
Band lengths:
254-894
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]