RnoINT0145282 @ rn6
Intron Retention
Gene
ENSRNOG00000010002 | Stpg3
Description
sperm-tail PG-rich repeat containing 3 [Source:RGD Symbol;Acc:1561978]
Coordinates
chr3:2433481-2433793:-
Coord C1 exon
chr3:2433659-2433793
Coord A exon
chr3:2433570-2433658
Coord C2 exon
chr3:2433481-2433569
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCAT
5' ss Score
2.99
3' ss Seq
GACCATCCGCCCCACTGCAGAGG
3' ss Score
6.53
Exon sequences
Seq C1 exon
GGCTAGAGAGACGTCCTCCAATCCTGACAGACCTGGATGTCCCTGGCCCAACCCAGTATGAGGCGCCCAATGTGTCTCTGCGAGAATCTTCTCCACACCCCCAATACACCATCGGGCGCAAGTACCCGGGTCGAG
Seq A exon
GTGCATGTCCCTACAAATCCTGCCTATACCGGGGGAATGGGAACCTCATGCCCTGAAAACCTCCCCACCGACCATCCGCCCCACTGCAG
Seq C2 exon
AGGGTGGTGGCCGCAGGGCATGGCAGACCATGTGGCTCCAGAGTGAAAGCCCCTTCACACAGAAGACTGACTTCAACCGAGAGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010002:ENSRNOT00000013278:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.717 A=NA C2=0.800
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACAGACCTGGATGTCCCT
R:
TGAAGGGGCTTTCACTCTGGA
Band lengths:
169-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]