BtaINT0043613 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011458 | CPXM
Description
Bos taurus carboxypeptidase X (M14 family), member 1 (CPXM1), mRNA. [Source:RefSeq mRNA;Acc:NM_001015642]
Coordinates
chr13:52847331-52847862:+
Coord C1 exon
chr13:52847331-52847419
Coord A exon
chr13:52847420-52847738
Coord C2 exon
chr13:52847739-52847862
Length
319 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
ATGCTACATTCACCCCCCAGCTG
3' ss Score
6.74
Exon sequences
Seq C1 exon
ATCCCAATGGTCTATTCCCTGAGGTTCCCATGCTGGGATCCTCCGACTCACTAGACTTCCGGCATCATGATTATAAAGCCATGAGGAAG
Seq A exon
GTAACCCCTATGACCCAGGAGGAAGGATCTGCTCATCTCAGGTCTCCTGCCCATCAGGGCATAACTTGCTATGATTGCTCTCATGTCCCCCTCCATCTCACCCTCCTTTTGACCCCTAAACTTCCACGATTTCCCTTGCTTTGGTGCTTCTCTTATTCTGACCGTTCCTTCCATGGCTGCTGCCCCCTCCTGTACTGTGCCATGGTGTACCCATCGTATGGGCCCTCGCAAACTTTTGAAGTCCCTCCGTGGCCTCGTGTGGTCTGAGCCCTGGGTCTGCTCCTCCCATGCCCCTCACCATGCTACATTCACCCCCCAG
Seq C2 exon
CTGATGAAGCAAGTGAACGAACAGTGCCCCAACATCACCCGCATCTACAGCATCGGGAAGAGCCACCAGGGCTTGAAGCTGTATGTGATGGAAATGTCGGACCAGCCCGGGGAGCATGAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011458:ENSBTAT00000053534:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=PU(2.3=6.7)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(46.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAATGGTCTATTCCCTGAGG
R:
CTCATGCTCCCCGGGCTG
Band lengths:
207-526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development