RnoINT0041715 @ rn6
Intron Retention
Gene
ENSRNOG00000021220 | Cpxm1
Description
carboxypeptidase X (M14 family), member 1 [Source:RGD Symbol;Acc:1306937]
Coordinates
chr3:122919244-122919613:-
Coord C1 exon
chr3:122919452-122919613
Coord A exon
chr3:122919354-122919451
Coord C2 exon
chr3:122919244-122919353
Length
98 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCG
5' ss Score
9.18
3' ss Seq
CTGTTCTGTCCTTATCCCAGGAT
3' ss Score
8.86
Exon sequences
Seq C1 exon
AGACCTCAGAACAGCATGTCCGACTGCGAGTCATCAAGAAGAAAAAGATCGTTGTCAAGAAGCGAAAGAAGCTAAGGCAGCCTGGTCCTCTGGTGACGGCCAGGCCTTTGGTGACCACTCACCCAGCAAAGACCCCCACTCTCCCTGAGAAACAAGAACCAG
Seq A exon
GTATCGCCTTTCCCCGGGCCCTGCCCAGCCAATGAACAAGCTTAGGCTCATTCTTCTTTGGTTACTAATCCTGTCTCCCTGTTCTGTCCTTATCCCAG
Seq C2 exon
GATGTCCCCCTCTAGGCCTTGAGTCCTTGCGGGTCTCAGATAGTCAGCTGGAGGCCTCCAGCAGCCAGTCCTTCGGTCTTGGACCACACCGAGGACGGCTCAATATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021220:ENSRNOT00000028818:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.636 A=NA C2=0.676
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0075420=F5_F8_type_C=PU(14.8=56.8)
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:
CCTCAGAACAGCATGTCCGAC
R:
CAAGGCCTAGAGGGGGACATC
Band lengths:
180-278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]