BtaINT0043610 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011458 | CPXM
Description
Bos taurus carboxypeptidase X (M14 family), member 1 (CPXM1), mRNA. [Source:RefSeq mRNA;Acc:NM_001015642]
Coordinates
chr13:52846197-52846532:+
Coord C1 exon
chr13:52846197-52846336
Coord A exon
chr13:52846337-52846441
Coord C2 exon
chr13:52846442-52846532
Length
105 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTGCCCACCTTTCCTGCCAGATA
3' ss Score
9.27
Exon sequences
Seq C1 exon
TCAGGCCTGGAAGATGGTGATCTTTTTGATGGGGCCTGGTGCGCCGAGCAGCAGGATGCCGAGCCATGGCTTCAGGTGGATGCTAGGCACCCCACCCGCTTCTCGGGCATTATCACACAGGGCAGGAACTCCATCTGGAG
Seq A exon
GTGAGGCAGGACAGCTCCAGGCCAGGGAAATTATGGGCAGACTCAGGAGGACTGGTGTGGGAGGCTTGGGGGCCACCCATGATCTCTGCCCACCTTTCCTGCCAG
Seq C2 exon
ATATGACTGGGTCACTTCATACAAAGTCCAGTTCAGCAATGACAGTCGGACCTGGTGGGGGAGTAAGAATCGCAGCAGCGGGATGGATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011458:ENSBTAT00000053534:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.065
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=FE(32.2=100)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(21.0=100)
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:
TCAGGCCTGGAAGATGGTGAT
R:
CATCCATCCCGCTGCTGC
Band lengths:
229-334
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development