DreINT0116600 @ danRer10
Intron Retention
Gene
ENSDARG00000102607 | pmpca
Description
peptidase (mitochondrial processing) alpha [Source:ZFIN;Acc:ZDB-GENE-030131-5809]
Coordinates
chr5:64355360-64355602:+
Coord C1 exon
chr5:64355360-64355439
Coord A exon
chr5:64355440-64355519
Coord C2 exon
chr5:64355520-64355602
Length
80 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
GTTGTTATTCTGATTTAAAGTCT
3' ss Score
2.7
Exon sequences
Seq C1 exon
TCTTGGTAAACTCAGGTTCACGTCATGAAGCAAAGTATCCCAGTGGAATTGCACACTTTTTGGAAAAGCTTTCCTTTTCT
Seq A exon
GTAAGTGTTAATATTTTGAGTTGGGTTTCGTTGATGGTTTTTATACTTCATTGCTTTGACGTTGTTATTCTGATTTAAAG
Seq C2 exon
TCTACAGCCCAGTTCGGAAGTAAAGACGAAATTCTGCTGACACTTGAGAAACATGGAGGGATATGTGACTGCCAAACATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102607:ENSDART00000164278:3
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTAAACTCAGGTTCACGTCA
R:
CTGGATGTTTGGCAGTCACAT
Band lengths:
160-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]