RnoINT0041356 @ rn6
Intron Retention
Gene
ENSRNOG00000013439 | Cpn1
Description
carboxypeptidase N subunit 1 [Source:RGD Symbol;Acc:70931]
Coordinates
chr1:263749491-263750025:-
Coord C1 exon
chr1:263749870-263750025
Coord A exon
chr1:263749674-263749869
Coord C2 exon
chr1:263749491-263749673
Length
196 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
AACCTCTGGTCTCTTCACAGGTG
3' ss Score
10.39
Exon sequences
Seq C1 exon
GGCCCAAACACGTCTGGGTATCTGGTTGGTAGGAACAATGCAAATGGGGTGGACCTGAACCGAAACTTCCCGGATCTCAACACCTATTTCTACTACAATTCGAAGTATGGCGGCCCCAACCACCACCTGCCCCTCCCTGACAACTGGAAAAGTCAG
Seq A exon
GTAGGAGATGAAAAGGGTAACAGAAGCCGGTAAATCTCAGCTGAATGGCTTGCAGCGTGCCAAGCACTCTTCATAGCAACAGAACCATCAGGGATTCAGCATCCTGGCTCCACAGGCCCCTTCCTGACAGCATCCTCCAAGGGGCCATGTGGCCACTCAGCCACAGCTTGGCGGCCAACCTCTGGTCTCTTCACAG
Seq C2 exon
GTGGAACCAGAGACCCGGGCAGTGATCCAGTGGATTCGATCCTTAAACTTCGTTCTCTCAGCCAATATGCACGGCGGGGCTGTGGTGGCCAATTACCCATATGACAAGTCACTGGAACACAGGTTCCGAAGTCCCCATCGCACCTCCAATTCCCCCACACCGGATGACGAGCTCTTCCAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013439:ENSRNOT00000018221:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.213
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(17.0=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(20.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTCTGGGTATCTGGTTGGT
R:
ATGGGTAATTGGCCACCACAG
Band lengths:
247-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]