GgaINT0057995 @ galGal3
Intron Retention
Gene
ENSGALG00000005197 | VPS37C
Description
NA
Coordinates
chr5:357534-358300:+
Coord C1 exon
chr5:357534-357702
Coord A exon
chr5:357703-358186
Coord C2 exon
chr5:358187-358300
Length
484 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
AATTGCTTTCCCCCTTCTAGGAG
3' ss Score
10.9
Exon sequences
Seq C1 exon
TTACGCCCGCCGCTGTTTGCGGCCTTTCGGTGCCGTCGCGGGCGTCGCGTTGGCGGAGGGGCTCCGCTCTGAGCCCCGAGCGGGGACGGAGCTGGGGAGAAGCGGGCCGAAGGGAGGCGAGCCTTGACAGGAGCGCCTGGTGCGAGCGAGCGGGCCTTCCGGGTGCGCT
Seq A exon
GTGAGTAAGAACTGAAGCTGTTCCTACGTCCCTAATGGGATCATTGCCTGCCTGCGGTGGGCTTGGTTTGACTGCGGGGAGGTTCACGCCGAATGTGAGGAAATACTGCTTCTCAGAAGGAGTGGTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGACCCGGCACAGCCTGCCGGGGGTGGTGCAGTCACCGTCCCTGGGTGTGCTCGGGAACCGTGGAGATGCGGCACTGAGGGCCGTGGCCCAGCGGGAGTGGGTCGGGCTGCATGACCTTAGTGGTGTTTTCCGGCCTTAGTGGCTCTCTGAATTGCTTTCCCCCTTCTAG
Seq C2 exon
GAGCCCACGGCTGCCGTGAGCATGGACACCCTGAAGGACCGTACTGTGGAGGAGCTGCAGGCACTGCAGGAGGATGCTGCGGAGATCGAGCGCTTGGCCCTGGAGTCCAGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005197:ENSGALT00000008347:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.474
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF072008=Mod_r=PU(18.0=71.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTACGCCCGCCGCTGTTT
R:
GGACTCCAGGGCCAAGCG
Band lengths:
277-761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]