RnoINT0121973 @ rn6
Intron Retention
Gene
ENSRNOG00000018486 | RGD1311084
Description
similar to 1700113K14Rik protein [Source:RGD Symbol;Acc:1311084]
Coordinates
chr3:9629842-9630538:-
Coord C1 exon
chr3:9630364-9630538
Coord A exon
chr3:9630055-9630363
Coord C2 exon
chr3:9629842-9630054
Length
309 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CAGTGCCTTGCTCCCTCTAGGAA
3' ss Score
9.09
Exon sequences
Seq C1 exon
GTCAGCTCAGGAACCACAGCTCTACCTTTCTGAGGATGCCACCGTGAGCAGCCGCCTACCCTTCATCTCCAGGGCCACCGCCCCAAGGCCAAGGGGAGGCCTAAGAACCTTCCTGGACACCCCTAACAATCCGGAGCAGGTGGGCAAATCGCCCTGTCCCGGGAGCCAGAAGCTG
Seq A exon
GTGAGCAGCCCAGGGCAGCTGGCCAGCAGAAGCACCAGCCCTCAGTGACTCTGCAGGGGAGCCTCTCTGTTGGATTTGTGTGGCCTGGCCTCCCTCGGTGTGGAGCGGAGGGGGAGGAAGTCCTTGAGCCTGGCTAGTGAGTGGGTGGGCTGTGCTTCAGTCTAGACCAACTGCAGGGAGGGACCACCTGCCGCCACGCCCCACCCCCGGGCCCCGGGGACCTGTCTCCTCCCACCTGGGCTCCCAGGGAACCTGTCTGCTCCCCGTCTCCTCCCTGGGCTCCCCTCAGCAGTGCCTTGCTCCCTCTAG
Seq C2 exon
GAATCCTTTCTGCCCAGTTTGGTGCTGCAGACCGTTCTAAAGCAAGGCCGCCCTAAGGGCTACCAGCTCCTTCTGCCGACCACAAACCGGCAGCAGGCTCACAGGTGAATGCCTGCCAGAGGCCCCCCTGCTCAGAAGTGTACCCATGCCAGGCAATGAGGAGAGTGCTTCTTCGCCCCACAAATAAACACACCTCCCAGGTGGCTGGGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018486:ENSRNOT00000024953:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.542 A=NA C2=0.486
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTCTGAGGATGCCACCGTG
R:
GGTGTGTTTATTTGTGGGGCG
Band lengths:
344-653
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]