RnoINT0041717 @ rn6
Intron Retention
Gene
ENSRNOG00000021220 | Cpxm1
Description
carboxypeptidase X (M14 family), member 1 [Source:RGD Symbol;Acc:1306937]
Coordinates
chr3:122918783-122919113:-
Coord C1 exon
chr3:122918974-122919113
Coord A exon
chr3:122918871-122918973
Coord C2 exon
chr3:122918783-122918870
Length
103 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TTCTGTATCTCTACATGCAGGTA
3' ss Score
8.75
Exon sequences
Seq C1 exon
TCAGGTCTGGAGGATGGTGACCTGTACGACGGGGCTTGGTGTGCCGAGCAACAAGATAATGAGCCTTGGCTTCAGGTGGACGCCAGGAGTCCTGCCCGCTTCTCAGGAATTGTTACGCAGGGCAGAAATTCTGTGTGGAG
Seq A exon
GTGAGGCTGGCCAACGCTTAGCCTGGAAGTTGTTAGTGGCCAGACATAGAAGTGCCACAGAGGCTCTTCTGGGACACCAATATTTCTGTATCTCTACATGCAG
Seq C2 exon
GTATGACTGGGTCACATCATTCAAGGTCCAGTTCAGCAATGACAGTCAGAGCTGGTGGATGAGTAGGAACAGTAGTGGGATGGACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021220:ENSRNOT00000028818:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.106 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=FE(32.4=100)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(20.4=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:
TCAGGTCTGGAGGATGGTGAC
R:
TGTCCATCCCACTACTGTTCCT
Band lengths:
226-329
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]