DreINT0091793 @ danRer10
Intron Retention
Gene
ENSDARG00000028533 | macf1a
Description
microtubule-actin crosslinking factor 1a [Source:ZFIN;Acc:ZDB-GENE-030131-3606]
Coordinates
chr19:35597066-35597746:-
Coord C1 exon
chr19:35597592-35597746
Coord A exon
chr19:35597487-35597591
Coord C2 exon
chr19:35597066-35597486
Length
105 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATGTTATTTTCCTCTTGTAGGGT
3' ss Score
11.09
Exon sequences
Seq C1 exon
GACATGTCTCAGCTAGAGAGCGGGCAGCCGGTGCGGTGTGAGAATGAATTGGGGATGTATCTGCAGGATTGCGAGGCTCTGGTCAGACAGCTTCACCTTGACCTGCAGGTCCTCCGAGATGAGAAGTACTACCAAGTTGAGCAGCTGGCTTTCAG
Seq A exon
GTAAGAGAAAAGTGCAGCCAGTTTGAATCATCCTTGCTGAACAAAATGTGCACATTTATATTTCCATCCAGCAGTTCTAATCCTCATGTTATTTTCCTCTTGTAG
Seq C2 exon
GGTGTCATGTCTGCAGGAGGAGCTGGTCTCTTTGCGCCTGCAGTGTGCCAGCGTGTACAGGAAGGGTCATTTCTCTACGGGTGGTTTGCTGGGGGAGCATGTGGGTCAGAGGGGATCTTCAGGGGGTCTGGCTACACTGGGAGCACAGACTCTTTTGGGAGCAGTGGCTGCTGCTGCATCCCTTCTCAGACGGCCCATGTCTCGTGCAGATCTGGTAGCCATGTCCTCCTCTGAGGATGAAGGCAGTCTGCGCTTTATTTATGAGCTGCTGGGATGGGTAGAAGAAACGCAAGATCTGCTGGAGCGAGCTGAGTGGGGTTCTGATCTGCCGTCTGTAGAACAGCATTTGCAGGACCACCATATCATTCACACTGCGGTGGAGGATCTTTTGAATAGCCTCAAAGAGGCTCGAACATATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028533:ENSDART00000146394:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(58.5=39.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTGGTCAGACAGCTTCAC
R:
TGCTCCCAAAAGAGTCTGTGC
Band lengths:
243-348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]