RnoINT0145281 @ rn6
Intron Retention
Gene
ENSRNOG00000010002 | Stpg3
Description
sperm-tail PG-rich repeat containing 3 [Source:RGD Symbol;Acc:1561978]
Coordinates
chr3:2433659-2434051:-
Coord C1 exon
chr3:2433894-2434051
Coord A exon
chr3:2433794-2433893
Coord C2 exon
chr3:2433659-2433793
Length
100 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
AGTTTGCTTTTTTGTATCAGGGC
3' ss Score
7.04
Exon sequences
Seq C1 exon
GTCCAATGCTACTGTGCTATGGTGGGACCAGGAGCTGGAGGCTGCCTGGGATGAGATGTGGCTCCCAAAGATGAAGAGAGCTTCAAGCGGCTTCAAATTAAAATCAGGCACTCCTAATGAGTCCACACCTATTGGCACAGGGACTCTGAGGGAGCTGT
Seq A exon
GTGAGTGAGAGTCTTCACTCCCTCCCCAGGCCGGCCAGGGGAGGCTGGGAAAATAGCCTTCTAAGGAGAAATGGGTCTAGAGTTTGCTTTTTTGTATCAG
Seq C2 exon
GGCTAGAGAGACGTCCTCCAATCCTGACAGACCTGGATGTCCCTGGCCCAACCCAGTATGAGGCGCCCAATGTGTCTCTGCGAGAATCTTCTCCACACCCCCAATACACCATCGGGCGCAAGTACCCGGGTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010002:ENSRNOT00000013278:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.352 A=NA C2=0.717
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:
TGCTACTGTGCTATGGTGGGA
R:
TGGGGGTGTGGAGAAGATTCT
Band lengths:
255-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]