DreINT0116597 @ danRer10
Intron Retention
Gene
ENSDARG00000102607 | pmpca
Description
peptidase (mitochondrial processing) alpha [Source:ZFIN;Acc:ZDB-GENE-030131-5809]
Coordinates
chr5:64368684-64369523:+
Coord C1 exon
chr5:64368684-64368746
Coord A exon
chr5:64368747-64369378
Coord C2 exon
chr5:64369379-64369523
Length
632 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAA
5' ss Score
2.91
3' ss Seq
CAAATGTGGGGTTTGTGCAGATG
3' ss Score
4.37
Exon sequences
Seq C1 exon
GTGCGGGAAATGGTGGAGATCATCACTAGGGAGTTTATTCAGATGACCGGGACAGCAGGAGAG
Seq A exon
GTGAAACCTTTGTCTATCACGTGTTATTATGATCGATTCGCACATTAAACAGGTTTTCAGGAATGAACATTATTGTAAACATCTAGTATATTGAATGTGCAAATATATGTTTATATTTAAATTTCATTAGCAAGGAATTTTCTATAATATTTTTTCTTATTATTTTAAGTCTTGTTTGTTTTATTTTGGCTAGAATGAAAGCAGTTTTAAATTTTTTTATAACCATTTCAAGGTCAATATTATTAGCCCCCTTAAGCAAATTTTTTTTTTAATTGTCATCTCCATTGTTATAATCTGACTTGCCTAATTAACCTAGTTAAGCCTTTAAATGTCACTTTAAGGTGAATACTAGTATGTTGAAAATATCTAGTAAAATATTATGTGCTGTCATCATGACAAAGATAAAATAAATTTGTTGTTAGAAATGATTTATTAAAACTATTATGTTTAGAAATGTGTTGGCAAAATCTTCTCTCCTTTGAACAAAAAAACAAAAGGGAAAAAAAAAACAGGCGGGCTAATAATTCTGACTTCAAATGTGTGTGCATGAATTGAGTAAGTGTGGAGCCTGTAATAAGAGAAGTTAGTCAGCATTAGCTGCATTGATGAGCTCAAATGTGGGGTTTGTGCAG
Seq C2 exon
ATGGAGCTGGAGCGAGCTAAAACGCAGCTCAAGTCCATGCTCATGATGAACCTGGAGTCTCGACCGGTCATCTTTGAAGACGTGGGTCGACAAGTGCTCGCCACCGGCAAGAGGAAGCTGCCGCACGAGCTGTGTGAGCTCATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102607:ENSDART00000164278:11
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=0.020
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCGGGAAATGGTGGAGATC
R:
TCGTGCGGCAGCTTCCTC
Band lengths:
191-823
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]