BtaINT0114587 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001353 | PMPCA
Description
Bos taurus peptidase (mitochondrial processing) alpha (PMPCA), mRNA. [Source:RefSeq mRNA;Acc:NM_001076964]
Coordinates
chr11:103918514-103918857:+
Coord C1 exon
chr11:103918514-103918593
Coord A exon
chr11:103918594-103918774
Coord C2 exon
chr11:103918775-103918857
Length
181 bp
Sequences
Splice sites
5' ss Seq
TCGGTCAGT
5' ss Score
7.03
3' ss Seq
GAGTCTCTTATTTCCCGCAGTCT
3' ss Score
7.23
Exon sequences
Seq C1 exon
TTCTTATTAACTCTGGATCAAGATACGAAGCGAAATATCTTAGTGGAATTGCTCACTTTTTGGAAAAATTGGCATTTTCG
Seq A exon
GTCAGTGTCCAGTTGGTCATTTTGAGTCTATGCTTGGAAAGAACCTATCCAGTTTCCTCTTTTAGAATGGCACTTTCCATAAGTGATTACGTTGCTGAGTTGATGCTAATTAAATACTTTCTTAAAGACTGTATTTGGCGGTGGCTTTGGACGCTCACTCAGAGTCTCTTATTTCCCGCAG
Seq C2 exon
TCTACTGAGAGATTTGACAGCAAAGATGAAATTCTGCTAACCTTGGAGAAGCACGGGGGTATCTGTGATTGCCAGACCTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001353:ENSBTAT00000001782:3
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:
PF0067515=Peptidase_M16=FE(17.2=100)
A:
NA
C2:
PF0067515=Peptidase_M16=FE(17.9=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:
ACTCTGGATCAAGATACGAAGCG
R:
CTCGAGGTCTGGCAATCACAG
Band lengths:
154-335
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development