BtaINT0043611 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011458 | CPXM
Description
Bos taurus carboxypeptidase X (M14 family), member 1 (CPXM1), mRNA. [Source:RefSeq mRNA;Acc:NM_001015642]
Coordinates
chr13:52846442-52847246:+
Coord C1 exon
chr13:52846442-52846532
Coord A exon
chr13:52846533-52847095
Coord C2 exon
chr13:52847096-52847246
Length
563 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
AAAGGACTTGATGCCCTCAGGTA
3' ss Score
3.61
Exon sequences
Seq C1 exon
ATATGACTGGGTCACTTCATACAAAGTCCAGTTCAGCAATGACAGTCGGACCTGGTGGGGGAGTAAGAATCGCAGCAGCGGGATGGATGCG
Seq A exon
GTGAGAAGTCCCATGGTGGCTGGGGCCCTCTGTGCTGGGAGTTGGGCTCCTGGCCCACTGTAGGGTGCTGGGCTGGGCTTGGACTCCTCTGAGGACAGGACACAGGTGCCCACTTGGGCATCCCAGGAGAAAGGATGGGTGGCACCCGGCAGACAGCCTCAGGAGCCAGGTTGCTTTGGACCATGCCCGCATCCTTCCCAAATACTTCCTCATGCCACAGCTTCCTGCTGGAACACCCCTTCTGGCGATGGGGTTCCTTGCATCACTTCTCATCTCCTCAGGCTACAGTGTGGGATCCTGGCCAGCTTCAGGATTGCCTGCTCCTGAGTCACATGGCCATATTGGTCTAATGAGCTGTGACTAAACTGGAAAGTATGGCTGCCTAGGGCTGCCTGTTGGCAAAGGATGTGGGCAGCGATCTGTGTTTGACACAGCGAGCAAGTGTCTAGCTGAGCCCACTAGGGTGGGTTTTTCATTGAGCTCACAGGCCTGAGCATCTTCCTGGGCCCTGAGCCAGGCTGCTAGGGTTCAAGCGGCCCTTACAAAGGACTTGATGCCCTCAG
Seq C2 exon
GTATTTCCTGCCAATTCAGATCCAGAGACACCAGTGCTAAATCTCCTGCCTGAGCCCCAGGTGGCCCGTTTCATTCGCCTGCTGCCCCAGACCTGGCTCCAGGGAGGTGCCTCTTGCCTCCGGGCAGAGATCCTGGCCTGCCCGGTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011458:ENSBTAT00000053534:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.098
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=FE(21.0=100)
A:
NA
C2:
PF0075420=F5_F8_type_C=PD(30.1=84.3)
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:
TGACTGGGTCACTTCATACAAAGT
R:
GGGCAGGCCAGGATCTCTG
Band lengths:
231-794
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development