BtaINT0043608 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011458 | CPXM
Description
Bos taurus carboxypeptidase X (M14 family), member 1 (CPXM1), mRNA. [Source:RefSeq mRNA;Acc:NM_001015642]
Coordinates
chr13:52845679-52846103:+
Coord C1 exon
chr13:52845679-52845840
Coord A exon
chr13:52845841-52845993
Coord C2 exon
chr13:52845994-52846103
Length
153 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CTGCTTTGTCCCTGTCCCAGACT
3' ss Score
7.3
Exon sequences
Seq C1 exon
GGACTTCAGAACAGCATGTCCGGATTCGAGTCATCAAGAAGAAAAAGATCGTCATGAAGAAGCGAAAGAAGCTAACTCGCCCCACACCCCCAGTGACTGCCAGGCCTTCAGTGACCACCAGCCCTTCAGGGACCCTTGACCTCCCTGAGAAGCAAGAACCAG
Seq A exon
GTACCACCACTCCAAGGGCCTTGCCCAGACTTGCAGTCTCTGGGACATGAACTAATGTAGCTCTTGGCCACACGGGCAAGTGTGGGTTCAGCTTTCCACTTGCCCTGACCACTGTTTCTCTTTTCCCAACTTACTGCTTTGTCCCTGTCCCAG
Seq C2 exon
ACTGTCCCCCTTTGGGCCTAGAGTCCCTGCGAGTTTCAGATAACCAGCTCGATGCATCTAGTAGCCAATCCTTTGGTCTTGGACCACACAGAGGACGGCTCAACATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011458:ENSBTAT00000053534:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.782 A=NA C2=0.946
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0075420=F5_F8_type_C=PU(14.7=56.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCATGTCCGGATTCGAGTC
R:
GATGTTGAGCCGTCCTCTGTG
Band lengths:
258-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development