BtaINT0114584 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001353 | PMPCA
Description
Bos taurus peptidase (mitochondrial processing) alpha (PMPCA), mRNA. [Source:RefSeq mRNA;Acc:NM_001076964]
Coordinates
chr11:103922994-103924533:+
Coord C1 exon
chr11:103922994-103923056
Coord A exon
chr11:103923057-103924388
Coord C2 exon
chr11:103924389-103924533
Length
1332 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TGAGCCACATGCCCCTGCAGGTG
3' ss Score
7.83
Exon sequences
Seq C1 exon
GTGCGAGAAATGGTGGAAATCGTCACGAGGGAGTTTGTTTTAATGGCTGGGACTGTGGACGTG
Seq A exon
GTGAGTACATCTGTGGTGCTGGCTGGTGGAGACTGCGGCATGGGGCGGCCAGCAGTGGCCTGTGTTCCGTGCCCACCCCAGCAGCGTCTCAGCCGGGGCAGCACAGCCCGCAGGCGGGGGCCCGTCCTTGCTGATGTCCCTGCTGAGGAGCCCCCAGCCCAGCCTCCTGGGCCCGCCCCACGGCACCTCAGCCGCCTGTGGAGGAACTGGAGAAGCACCCCACGGAATGAGCTGGCCACCCGGGGCGTTTGTCTCACCTTTTCTGGCTCTTGTTTGTTTTTAAGTCCTGTTTCCTTGTTTGTTTTTTATGCCATACACGTTTAGAAGTCTTGTTTTTTCCTGGAGCAGAGCTGGCACAAACGAGCAGGTTCTGTGTACACGGTCCATGTGGACTGTGCTCATACACTTCCACAGGCACCCAGCAGCAGAGAGCCCGGCGCATGAGCCGTCTCCTCTGGGTTAGAGCTGCTTTCTGCGTGTCTTGTCTGCAGGATATGCAGTTACCACATATTTCTTTCCTGATAAGAAGCATGGTATTAAGAATAAAAACACGTGTGGAAGTTTGCACTTGACATCGTTAGCATCCTACCAGAAAAACAGTGCAGTGTTTTTCTCTCAGGCAACGCCAATTTGAGACAAAAAGTATTTGCCTGAAGTTGCAAAAGTGAATGAGGCCTGTGTTAGGTCAGGACTTAGCGTACTTCAGTGGTGCGGAGTCAGTGCTGATGCTTCTCCAGGCCTGCGCGCCCCTAGCAGGCGGCCTGTGCCTCTCCTCAGCCCCGCCTCTCCCCTCGAGCTCCGGGTTGGGCCTCGGGGACATGGCCACTGGGCTCTCAGTCTAAGCTTCCGGCTTGGTCGCAGGGGCCCCAGGTGCAGAGCTGGTGGGGTGAGCACCGCTGCCCGGGCCTTGCTCCTGGGCTGGGGGTTGGCCCTGGAGCTGACAGAGCCGGCAGCCAATTTGTTTTCCTGTGATTGCCGTGTGCGGTCCCCTTTGGGGTCCTGCAGTTCGGGGGTTTGTGGTTTTTCCTGCTTGTGTCACACAGCAGACTGTTTATACACAAGCGCTCCAGGGAGGCAGGACTTAGGCCTGTTTGGGATGTGGCCAAGGCCCTGTTAGTGCATTCCCCCCAACCCAGAAAGCCCGAGGATAAAGCATGGCGGGACTTGGCTGGTGACTTCGGCGAAAGCCTGGGCCCGGGGGGCTTCCTCCCTTATTCAGCCCAGGGTAAGCGAAGACCCTTTCTCAGGACATGTCTTTCAGCCTCTGCCGCCTGGGCCACGTGCCAGTGGCCGGGTGCTGGGGCGTGAGGACTGAGCCACATGCCCCTGCAG
Seq C2 exon
GTGGAGCTGGAGCGGGCCAAGACGCAGCTCACGTCCATGCTCATGATGAATCTGGAGGCCCGGCCTGTCATCTTTGAGGACGTGGGGAGGCAGGTGCTGGCCACACGTTCCAGAAAGCTGCCCCACGAGCTGTGTGCACTCATCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001353:ENSBTAT00000001782:11
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=0.000
Domain overlap (PFAM):
C1:
PF0519316=Peptidase_M16_C=FE(10.0=100)
A:
NA
C2:
PF0519316=Peptidase_M16_C=PD(4.5=18.4)
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:
TGCGAGAAATGGTGGAAATCGT
R:
GATGAGTGCACACAGCTCGT
Band lengths:
206-1538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development