BtaINT0043604 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011458 | CPXM
Description
Bos taurus carboxypeptidase X (M14 family), member 1 (CPXM1), mRNA. [Source:RefSeq mRNA;Acc:NM_001015642]
Coordinates
chr13:52848234-52848780:+
Coord C1 exon
chr13:52848234-52848413
Coord A exon
chr13:52848414-52848482
Coord C2 exon
chr13:52848483-52848780
Length
69 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
CCTGACCTGCCCTTGTCCAGGTG
3' ss Score
8.66
Exon sequences
Seq C1 exon
GGCTCAGAGCTGGTGGGCTGGGCAGAGGGCCGCTGGAACCATCAGGGCATTGATCTTAACCATAATTTTGCTGATCTCAACACACCACTGTGGGAAGCAGAAGATGAAGGGCTGGTACCTGACACTGTCCCCAACCATCACCTGCCACTGCCCACTTACTACACTCTGCCCAATGCCACT
Seq A exon
GTGAGTATTCTGGACCACCCCGGGGGCCTTTGTCTCTGTCTCCCACTCCCCTGACCTGCCCTTGTCCAG
Seq C2 exon
GTGGCTCCTGAAACATGGGCAGTGATCAAGTGGATGCAGCGGATCCCTTTTGTGCTAAGTGCCAACCTCCACGGGGGTGAGCTCGTGGTATCCTACCCCTTCGACATGACTCGGACTCCGTGGGCTGCCCGTGAACTCACGCCCACCCCGGATGAGGCTGTGTTTCGCTGGCTCAGCACTGTCTATGCGGGCACTAATCGGGCCATGCAGGACCCAGATCGACGACCCTGCCACAGCCAGGACTTCTCCCTGTACGGCAGCATCATCAACGGGGCTGACTGGCACACAGTTCCTGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011458:ENSBTAT00000053534:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.070
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(19.1=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(32.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACACTGTCCCCAACCATCAC
R:
CCGAGTCATGTCGAAGGGGTA
Band lengths:
174-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development