RnoINT0041716 @ rn6
Intron Retention
Gene
ENSRNOG00000021220 | Cpxm1
Description
carboxypeptidase X (M14 family), member 1 [Source:RGD Symbol;Acc:1306937]
Coordinates
chr3:122918974-122919353:-
Coord C1 exon
chr3:122919244-122919353
Coord A exon
chr3:122919114-122919243
Coord C2 exon
chr3:122918974-122919113
Length
130 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGC
5' ss Score
5.52
3' ss Seq
CGATGATCTTGTGTCCACAGTCA
3' ss Score
7.9
Exon sequences
Seq C1 exon
GATGTCCCCCTCTAGGCCTTGAGTCCTTGCGGGTCTCAGATAGTCAGCTGGAGGCCTCCAGCAGCCAGTCCTTCGGTCTTGGACCACACCGAGGACGGCTCAATATCCAG
Seq A exon
GTTGGCAACCCTGGCTCAGCCAGATCGAGGGGTAGGGAAGCACAGGCTTAGGACCAGCTCCTTCTCTCCCCCATCCTCCCTCTTCTCTACGGCCCACCTGGGCTTGATCACGATGATCTTGTGTCCACAG
Seq C2 exon
TCAGGTCTGGAGGATGGTGACCTGTACGACGGGGCTTGGTGTGCCGAGCAACAAGATAATGAGCCTTGGCTTCAGGTGGACGCCAGGAGTCCTGCCCGCTTCTCAGGAATTGTTACGCAGGGCAGAAATTCTGTGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021220:ENSRNOT00000028818:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.676 A=NA C2=0.106
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PU(14.8=56.8)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(32.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGTCCCCCTCTAGGCCTTG
R:
AGAATTTCTGCCCTGCGTAACA
Band lengths:
242-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]