DreINT0097801 @ danRer10
Intron Retention
Gene
ENSDARG00000076334 | mrpl43
Description
mitochondrial ribosomal protein L43 [Source:ZFIN;Acc:ZDB-GENE-040718-125]
Coordinates
chr12:33716344-33717240:+
Coord C1 exon
chr12:33716344-33716630
Coord A exon
chr12:33716631-33717133
Coord C2 exon
chr12:33717134-33717240
Length
503 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
AAATGATATTTCTCCTCTAGGGA
3' ss Score
8.39
Exon sequences
Seq C1 exon
CGGATGAAACTGCGTAGCGTACTTGACATTGCACATGCCTTCTTGACTGCTGTCCAGTACATTTGATTATTAAAAGTGTGTGATATTACTCCGAGCAACACAGACAGCAATAAAAGAGTCAGCAGATCTGAATGTAGGATCTCTGTAAATGTGGACATGACAGCTCGAGGGACACCGAGTCGGTTTTTACAAAGCGTTCTTCAGAATGGAGTGGGTCGCTATGTCTGTCAGCTAAAGCGAATCTCTCTGATCTTCTCCAAGAAAGGACAGGGGTCTTTAGGAGTCAG
Seq A exon
GTATGAGTTTATAGCAACTGTGATGAACCTGCATACAATACCGCCAACACAGGTCCGTGAGAATATTTGAAGAAAAGCATAAGAAATGTACAAAAGAAGATTTAAAACAAAAAACAAGAGCATTAAAACATTCGAACATTTTATTAGGATAAACCACATTACCATAAAGAATTTTATAACATGTATAAAACATGTAAATGATAAGCGAATACAGTTTATATTATATAAGTAAAAAGTTAATTATATATATATATATATATATATATATATATATATATATATATATATATATATATAGATAGATAGATACACATGCATACCAAATTTGTAAATAAATAATGCGGTGTGATGAGAAAAAAAACTATAACTTAATAGAAAAGAAGCATTTTAATAATATTTGTAATAATTAATTTGTAATACAGCTACATAATTAAGTGATATTTTGCATAATTTGTTTGATAATAATTATAAGTGACCTAATTTAAATGATATTTCTCCTCTAG
Seq C2 exon
GGATTTCATTGAAGAAGGCGTGGTCGACTTTGCAAAGAATAATCCGGGAACTGTGGTTTACATCTCACCTCAGTCCAGCAGAATTCCAAAAATAGTAGCTGAGTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076334:ENSDART00000111486:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0504711=L51_S25_CI-B8=PU(1.9=2.3)
A:
NA
C2:
PF0504711=L51_S25_CI-B8=FE(69.2=100),PF0344812=MgtE_N=PU(20.4=27.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTACTTGACATTGCACATGCC
R:
TGCTGGACTGAGGTGAGATGT
Band lengths:
350-853
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]