DreINT0152445 @ danRer10
Intron Retention
Gene
ENSDARG00000004246 | slit2
Description
slit homolog 2 (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-010306-3]
Coordinates
chr1:23162427-23163090:+
Coord C1 exon
chr1:23162427-23162590
Coord A exon
chr1:23162591-23162957
Coord C2 exon
chr1:23162958-23163090
Length
367 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGTGTGTATGTGTGTTTTAGGGC
3' ss Score
11.45
Exon sequences
Seq C1 exon
TCGCCTGCACTCTAATAATCTGCTATGTGATTGCAATGTGGCCTGGCTCTCTGATTGGCTGAGACAGAGGCCCCGCCTTGGCCTCTACACACAGTGTATGGCTCCACCCTCCCTTAGGGGCCACAACATCGCAGAGGTTCAGAAGAAAGAGTTTATGTGTACAG
Seq A exon
GTGAGTTTCTGACTGTTTTACTTACCCAGCATGTTTATAGGAGACATGTCATATGAGAATAAAGAGACAAACATTTATAAATACATACATTTGCTGTTTTTTGTAGAGCCTTTCATATTCTGTCATATTCATTTTTTTTTAACTGTTATCTTTCTTTGCTCATGCTTTCAAGACTTCAGTGAAGGCAAGTTATTTTGGGCTGAAATAACACGAGTAAAAAAAATCAGATTGCATTTAGTTTCTAATATGCAGCCCACAACTTGTTTGCTTAAGCTTTTATTAAAATTTAACTAATCTTTGTGAGACATACAGTACAATATGTGTCTGCATTCTCATCATCATCTGTTTGTGTGTATGTGTGTTTTAG
Seq C2 exon
GGCCCCAGTCACACTCATCCTGTAGTGTGCTGCAGTGTCCTGAGCTCTGCACCTGCAGTAATAATGTAGTGGACTGCCGGGGGAAAGGACTTACTGAAATACCCACCAACCTGCCAGAAACTATCACTGAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004246:ENSDART00000007531:8
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:
PF138551=LRR_8=PD(11.5=12.5)
A:
NA
C2:
PF0146213=LRRNT=WD(100=62.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGCCTGCACTCTAATAATCTGC
R:
TCAGTGATAGTTTCTGGCAGGT
Band lengths:
294-661
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]