RnoINT0145284 @ rn6
Intron Retention
Gene
ENSRNOG00000010002 | Stpg3
Description
sperm-tail PG-rich repeat containing 3 [Source:RGD Symbol;Acc:1561978]
Coordinates
chr3:2432690-2433225:-
Coord C1 exon
chr3:2432931-2433225
Coord A exon
chr3:2432824-2432930
Coord C2 exon
chr3:2432690-2432823
Length
107 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGG
5' ss Score
5.74
3' ss Seq
TCAGCTCACTCTCTCTGCAGCCC
3' ss Score
9.89
Exon sequences
Seq C1 exon
TGGCCATCGCCTGCCGAGTACACGCCGTTGAGTCAGCCTGCCTTCCCGGCCTTCAGCTTTGGAAGCCGCCGTCGCTCTTCGGCCAAAATACCTGAGAGGCATTTCCGCCCGGGGATGCTCCGAGCCCGAGGTCCTTGTAACTATACCCCACTCTTGGCTACCTCAAAGCCCTCTGGCGAGAAGCGACCCGGCCCCAACACCTATAACATCTTTCCTGGGTGCCGTCTGCAGAGCACACGCTCACCCGCCTTCTCCATGAGCCGCTCTCCTGCGTTTGCATCCTGGGTCAGCTCCA
Seq A exon
GTAAGGAAGACCTAGAAAAAGAGGCTTGGGGGTGGTTTGGGTCTTGGGCCGCAGGGGAAGGGAAGGATGCTGGGGTGAGGACTAGGGTCAGCTCACTCTCTCTGCAG
Seq C2 exon
CCCGAACCCCAGGTCCAGCTGCCTACTACGTGGAAGACTGCTACAATTCACGCTTCCCTTCTCCACCTGGAGTAGTTATCCAAGGAGTGCGGAGACCCAAGCGCCATGACACAGGCCCCTTCTGCACACTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010002:ENSRNOT00000013278:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=0.273
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
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:
TACCCCACTCTTGGCTACCTC
R:
GGTCTCCGCACTCCTTGGATA
Band lengths:
249-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]