RnoINT0122962 @ rn6
Intron Retention
Gene
ENSRNOG00000045924 | RT1-T24-3
Description
RT1 class I, locus T24, gene 3 [Source:RGD Symbol;Acc:1624211]
Coordinates
chr20:3232306-3232825:+
Coord C1 exon
chr20:3232306-3232581
Coord A exon
chr20:3232582-3232686
Coord C2 exon
chr20:3232687-3232825
Length
105 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGG
5' ss Score
5.84
3' ss Seq
TCTTTCTTTTCCCTTTCCAGAGC
3' ss Score
12.62
Exon sequences
Seq C1 exon
ACCCTCCACAGACAACCGTGACATGCCACCCCAGACCTGAAGGTGATGTGACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGACCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTACCTCTTGGGAAGGAGCAGAAGTACACATGCCGTGTAGAGCATGAGGGACTGCCTGAGCCCGTCAGCCTGACATGGG
Seq A exon
GTATGGAGAGAATAGGGGCACAGAGCCTATTGCCAAGGGAAGCAGAAGCCCTTTTAGAGACCCTGAGCATAGCCAGGGTCCTCCATCTTTCTTTTCCCTTTCCAG
Seq C2 exon
AGCCTCTTCAGCTCACCACGTCCAAGACAGAAGTATGTGCTAGGGGCAGATGGGGACTTCAAGCAACCACCCTGTGTGTCCTCATGGTTTTCTGGGCCTGGTGCTAGTGTTTCTTGGACTTACCTGCTACAGAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000045924:ENSRNOT00000070903:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.161 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=94.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
CTGACCTGGCAGTTGAATGGG
R:
CACAGGGTGGTTGCTTGAAGT
Band lengths:
257-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]