RnoINT0041720 @ rn6
Intron Retention
Gene
ENSRNOG00000021220 | Cpxm1
Description
carboxypeptidase X (M14 family), member 1 [Source:RGD Symbol;Acc:1306937]
Coordinates
chr3:122917436-122917970:-
Coord C1 exon
chr3:122917882-122917970
Coord A exon
chr3:122917560-122917881
Coord C2 exon
chr3:122917436-122917559
Length
322 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
TGCTCCTCTCTGCTTCCCAGTTG
3' ss Score
7.85
Exon sequences
Seq C1 exon
ATCCTAATGACCTGTTCCCTGAGGCCCATACACTAGGATCATCTGACTCTCTGGACTTCCGGCATCACAATTATAAAGCTATGAGGAAG
Seq A exon
GTCAGATTAACTCCCATGACCCTGGAAGGAAGCCTGCCTATCCCCTTCCCGCCGGGGCAAACTGGCTATGACTACCCATGAATGCCCTGTCTCTGTGTCCCCCTTTGTCCTACTTGTCTTGATCTCTAAGTTCTGTTCCAATTCAATTACCCTTGTCACGACACCACCCCTTTGCTGCGCCCCGCCCTCCCCCAGCTGCTCCGCCTTTTCTGGATCATACTATGTTGCTCCCATCTCTGTGGACCACCATCAACTCTGTAAGTCTTTCCTGGGTTACGCACGTTCTGCATGTAACTGCCTCGTGCTCCTCTCTGCTTCCCAG
Seq C2 exon
TTGATGAAAGAGGTGAATGAGCAGTGCCCCAACATCACCCGCATCTACAGCATCGGGAAGAGCCACCAGGGCCTGAAGCTCTATGTGATGGAAATGTCAGACCATCCAGGGGAGCACGAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021220:ENSRNOT00000028818:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=PU(0.6=6.7)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(13.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAATGACCTGTTCCCTGAGGC
R:
CTCGTGCTCCCCTGGATGG
Band lengths:
206-528
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]