BtaINT0043609 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011458 | CPXM
Description
Bos taurus carboxypeptidase X (M14 family), member 1 (CPXM1), mRNA. [Source:RefSeq mRNA;Acc:NM_001015642]
Coordinates
chr13:52845994-52846336:+
Coord C1 exon
chr13:52845994-52846103
Coord A exon
chr13:52846104-52846196
Coord C2 exon
chr13:52846197-52846336
Length
93 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
GCTGCGTCCTGTGCCCACAGTCA
3' ss Score
8.39
Exon sequences
Seq C1 exon
ACTGTCCCCCTTTGGGCCTAGAGTCCCTGCGAGTTTCAGATAACCAGCTCGATGCATCTAGTAGCCAATCCTTTGGTCTTGGACCACACAGAGGACGGCTCAACATCCAG
Seq A exon
GTCAGCAAGGCAACCCCTAGGACCTTCTTCCCTGCCCTTCCCACCTTCCCTTAAGGCCTACCCGGTTCTGATTGCTGCGTCCTGTGCCCACAG
Seq C2 exon
TCAGGCCTGGAAGATGGTGATCTTTTTGATGGGGCCTGGTGCGCCGAGCAGCAGGATGCCGAGCCATGGCTTCAGGTGGATGCTAGGCACCCCACCCGCTTCTCGGGCATTATCACACAGGGCAGGAACTCCATCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011458:ENSBTAT00000053534:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.946 A=NA C2=0.085
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PU(14.7=56.8)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(32.2=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:
AGAGTCCCTGCGAGTTTCAGA
R:
GTGCCTAGCATCCACCTGAAG
Band lengths:
181-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development