RnoINT0122963 @ rn6
Intron Retention
Gene
ENSRNOG00000045924 | RT1-T24-3
Description
RT1 class I, locus T24, gene 3 [Source:RGD Symbol;Acc:1624211]
Coordinates
chr20:3232687-3233694:+
Coord C1 exon
chr20:3232687-3232825
Coord A exon
chr20:3232826-3233273
Coord C2 exon
chr20:3233274-3233694
Length
448 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
AGGCTGTTCCCTCCCTACAGGCC
3' ss Score
10.52
Exon sequences
Seq C1 exon
AGCCTCTTCAGCTCACCACGTCCAAGACAGAAGTATGTGCTAGGGGCAGATGGGGACTTCAAGCAACCACCCTGTGTGTCCTCATGGTTTTCTGGGCCTGGTGCTAGTGTTTCTTGGACTTACCTGCTACAGAATCCAG
Seq A exon
GTAGGAAAGAGGACGTCTGGGTGCCCTGTGTTGAAAGGAGGGTTAAATTCAAGTTGTAAACTCTTGCAATTGGGCCGGGGTGACTTTCTGTGGTGTAGCAAAGCCTGAAGGTTCTGAAAGCTGCAAGTGCGAGGTGGGAGAGACTGTCACAACGTCCCTGTCCCTAGCACCTGCACACCAAGGCTGGTATGGCTGCTTCCAGCCTCCGGCATTTCTCCCAGAGCATGGAAGCCCCATGTCTCTATGCAGGTTCTAGGAGCACCTGTGATGCCCAAATAGTCCCAAAGCATCTGGGAAGTGAGTCTGCTTCTCAGGGGATAAAATGTCTCAGGCTCTCCTCCTCAAATGCCTGAAATTCTTATAAGAGATTAAGTGGAAACTAGACAGGCTCCCGAGTGCACCTTGCATCCTCACAGTTAACTTCATACAGGCTGTTCCCTCCCTACAG
Seq C2 exon
GCCAGAAGAAAGGACTGGCTCCGTCAGTTCCTGAAGAGGAGAGGCTCTCAGGATGAGGACCCAGGGACAGGGGGCTCTGTGGGACCGGGAAAGGTAGCCTAGTCCCCGGGTGAGCTAAGGCAAGAAGCCCAGAGACTCTGAAGGGATGGTAGGAGCTTTGCCTGTGCCTGGGCACTAGGCCCATCAGTAGCCGTACCCTCATAGATTTGTGGCCATCAGTTATGTAATGGCAAAAGGCCCAAGCCCCCCACATTAGATGAAGAAAAGAGCTGTGACTCCAAGTCACAGAGGCTCTTAGGCTTGTGGACAGCTTTTGGGAGTCAGTTCTCACCTTTGATCTCTGGGGATCAAAGAGTTTGGAAAGACGCCATTTACCCACTGAGCCTTCTCTCAAGCCTCAATAAACATCTTTAAATTCTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000045924:ENSRNOT00000070903:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
GGCCTGGTGCTAGTGTTTCTT
R:
TGTCCACAAGCCTAAGAGCCT
Band lengths:
354-802
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]