DreINT0152361 @ danRer10
Intron Retention
Gene
ENSDARG00000044954 | slit1a
Description
slit homolog 1a (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-030722-3]
Coordinates
chr13:452088-453833:-
Coord C1 exon
chr13:453670-453833
Coord A exon
chr13:452112-453669
Coord C2 exon
chr13:452088-452111
Length
1558 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAAG
5' ss Score
6.84
3' ss Seq
TGTTCCTCTATCTCCAACAGCTA
3' ss Score
8.96
Exon sequences
Seq C1 exon
TCATCTGGCTCAGAATCCCTTCATCTGTGACTGTAACCTGAAGTGGTTGGCAGATTACCTGCGCTCCAACCCCATCGAGACCAGCGGAGCGCGATGCACCAGCCCTCGACGCCTCGCCAACAAACGCATCGGCCAGATCAAGAGCAAGAAGTTCCGCTGCTCCG
Seq A exon
GTAAAGCACTCACGCTTTGCCCATATCACATTCATATTCATGTATTCATTAGCATGATATGGTACCAGTGCTTTATTGTTAATCATAGTAATTGTCATTTCTTAGTGTAATATAGTATAATGTAGCAGTAGTAGTAAACATGCTCAGAAATAAAGGTATGTGAGCTGTCACTGGGGTGGTACCTTTTCAAAAGGTACAAATTTGTTCCTAAAAGGGCCATAATATTACCTCAAGGGTACATACTAGCACCTAAAAATAACAAAAGTGTTCCTCTTAAAATTTGTAGGTACTAATATATACTTTTGAGGTACCAATATGGACCCTTCAAGTACAAATTTTGAAAAGGTACCGCCTCAGTGCAGCTCGTGTACCTTTATTTCTGAGAGTGTAGGATCTATTGGAACTCATTTATCTGCATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTACATTACAACACAGTACATTATAGTAGTGTCATATAGTATCAATTGTATTAATGTATTTGTATAGTATAGTTTAGTATAGTATAGTATAGTATAGTACATTACAGCACAGTACATTATAGTATAGTGTCATATAGTATCAATTGTATTAATGTATTTGTTTAGTATAGTATAGTATAGTATAGTATAGTGTATTATCATATACTATAGTATAGTATCGTATAGCATAGTGTAGCATAGTGTAGCGTAGTGTAGTGTAGTAAAGTATGGTGTCATATACTATAATAAAGGTATTTATTAATTTGTATAGTATAGTATAGTAAAGTAGCATGTAGCTCTGTTAGTAAAGTATCTATTTTAATTTATTTATTTCTGCATTGTTGTATAGTATACGGTTTCTCTGCTAGTATATTAGCATATTTCTGTTCAGTACTGTACAGTATAGTGTAGTGTGGATTTTTTTAGTATATTAGCATATTACTGTTTATCTGTACAGATCAGTAAAATATAGTATGGTATAATATAGTATCATATCATATAATATACTGTTATATAATAAAGTATAATGCAGCTCTGTTACTATATTATCATTTATCTGTACAGTACAATATAAATAGTATAAAATAGTAAAGTAACATGTAGCTTTGTTAGCATAAAACCATTTAAATACATTTATTTGTACAGTACAGTACAGTATAGTATAGTATAGTATAGTATAATGTAGCTCTGTTCGTATAGTGTCTATTATAATTAATTTACTAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATAGTATCTGTGTTGCTCTGTTAATGTATTGCCATTTATCTGTACACTATATTATAGTATTGTGTTTTTATGCTGAGATGAAAAGCTATAAACTTTAAACTTGTGCTGGGCAAAGAATAATCACAATTTTATATATCTCATGTCATCTTATGTCTTATTCAGTGTCAAATGATCAGTCAGAGGTTATTCTAATATGCAGATTTGATGGTGATGATGAATATTTGTGATTATTATTGTTATTGTATCATCACTGACTGTGTGTGTTCCTCTATCTCCAACAG
Seq C2 exon
CTAAAGAGCAGTACGTCATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044954:ENSDART00000128969:14
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:
PF127992=LRR_4=PD(46.6=48.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCAGAATCCCTTCATCTGTG
R:
CTGGAATGACGTACTGCTCTT
Band lengths:
182-1740
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]