RnoINT0122933 @ rn6
Intron Retention
Gene
ENSRNOG00000000763 | RT1-M3-1
Description
RT1 class Ib, locus M3, gene 1 [Source:RGD Symbol;Acc:3494]
Coordinates
chr20:1816304-1816797:-
Coord C1 exon
chr20:1816522-1816797
Coord A exon
chr20:1816418-1816521
Coord C2 exon
chr20:1816304-1816417
Length
104 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
ACCCTCCACTTCTTTCCCAGGAG
3' ss Score
9.11
Exon sequences
Seq C1 exon
ATCCCCCAAAGGCACATGTGACCCTTCACCCAAGACCTGAAGGTGATGTCACCCTGAGGTGTTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTAACCTGGCAGTTGAATGGGGAGGACCTGACCCAGGACATGGAGCTTGTGGAGACCAAGCCTTCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTTCTGGAGAGGAGCAGAAATACACATGCCATGTGGAGCATGAGGGGCTGCCTGAGCCTCTTGTCCTGAAATGGG
Seq A exon
GTAAGGATGGGTAAGGGTAACAGAACTAAGGAAAGAAGGAGCCTAGATCAAGATCAGGGATGAGAACTGGGGATCGGGACCCTCACCCTCCACTTCTTTCCCAG
Seq C2 exon
GAGGATCGTCTCAGTCCTTTGTCGTCATCATGGTCATCATAGTAATCATTGTTATTCTGGCTCTCCTGGGAGGTGTGCTCACTGTTGTTTTGGTGTACAGGAGGAGGGGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000763:ENSRNOT00000000990:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=93.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACATGGAGCTTGTGGAGA
R:
CCCCTCCTCCTGTACACCAAA
Band lengths:
256-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]