DreINT0051644 @ danRer10
Intron Retention
Gene
ENSDARG00000073716 | cpxm1a
Description
carboxypeptidase X (M14 family), member 1a [Source:ZFIN;Acc:ZDB-GENE-030131-5284]
Coordinates
chr13:9272177-9272517:-
Coord C1 exon
chr13:9272408-9272517
Coord A exon
chr13:9272317-9272407
Coord C2 exon
chr13:9272177-9272316
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
GTGTGTGTGTGTGTTTGTAGTCT
3' ss Score
7.7
Exon sequences
Seq C1 exon
ATTGTCCACCGCTGGGTTTGGAGTCTCTGAAAGTCTCTGATGATCAGCTGCAGTGCTCCTCATATCTGAGCGTTGGGCTCGGGCCTCACAGAGGACGCCTCAATATACAG
Seq A exon
GTCAGTTTTTTTGAGGTAGATTTGATGTGATACATTGTGTTATGTATTTGCATATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTAG
Seq C2 exon
TCTGGTCTTGAGGATGATGATGAGTATGATGGAGCATGGTGTGCCGGTGAGGAGGATCAGGAACAGTGGTTGCAGCTGGATTCTCTCAGACTGACACTCTTTACCGGTGTCATCCTGCAGGGTAGAAACTCAATCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000073716:ENSDART00000058066:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.106
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PU(14.9=56.8)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(32.6=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:
CCTCATATCTGAGCGTTGGGC
R:
TCTACCCTGCAGGATGACACC
Band lengths:
179-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]