DreINT0152464 @ danRer10
Intron Retention
Gene
ENSDARG00000034268 | slit3
Description
slit homolog 3 (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-010306-4]
Coordinates
chr14:24232451-24234187:-
Coord C1 exon
chr14:24234063-24234187
Coord A exon
chr14:24232549-24234062
Coord C2 exon
chr14:24232451-24232548
Length
1514 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ATTACTTTGTCTCTCCTCAGGGT
3' ss Score
11.55
Exon sequences
Seq C1 exon
GTCCAGCAGATCTGAATCTGATGTCCAAGTGCGCCCCCTGTCTGGCAACTCCCTGTCAGAATAATGGCACTTGTGTGAGTGATGTCACAGGCTCCTACCACTGCACCTGCCCTTTTGGCTACAAG
Seq A exon
GTGAGTAAACACCAAACAGCCCACATACATCCTCTGGGAGCATCTCTCCTGTCCTCCTGCACATGAGCACAGAATATTCCAATGAGTTATGTGCATCATTACATGCAGGAGAGCCTCATCATCCATCTTCCCCAGCCCAGCTCGCTGTATTCAAATTCCTTGATTAGTTCCTATTGTACTTAGGCAGCTATTTGTGAGGCAATGTTTGCGTATTGGATTCATACTCAGCATTATGCGACCTTGAAGGTGAGAAATTATAATTATATGGCATCAATAGTGGTTCACTTCCATCATTTAAAACACATTGTCTTTTATTAATGTACCATAGTATATGTTAACCAAACTTTAATCCACCTTTAGAAGCGGATTAACCTTGCTGGTGTACATCCAAAAATGCTTGAAAGCAGCTTTGGAAATTCCAAATGGAGCAAAGACTGAGATCTAACAGACTTGGTTTCACACATAAAATGCTTCAAGAATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTCTCCTTGCTGCAGTGTGCAATCATTACCCTTTTGTTTGGTTATGGGATTCCTGTCAGTGTTGTTCTGTTGAAGAACAGATAAGAGCTTAACCCTTCGCCCTCTACAAGACAGAACCATTGGGCTGTCTTTTAATTAAAACCGCAGCTCTCAAGGTCAGTTGCAGGTGTGCGTCTGTCCTCAGAGTAAGTGAAGATTAATTAGAATGTTCAAGAGAACTGAATTAAATGAAACATACGAGAAACGAAATGGAAGAAGAAGAAAAAAACGGGCAGAAAGAGAGAAAACAGAGACATATGGGTTCTTTGCGGCGAGCAGAGAAAACAAGCATATCAGTGGCAAAAGCCTTTGTCTGAAATTGAAATGGAGAGTGTTAGTCACGGAGTTACAGCCCCGGAGAGTAAACGGATCAGGGCAACACATACATCTTCCATAAACCATGATATTAAACTAATCTGGACTCTGGGCCTGGATATACAGCTAGTAAACAAATACATTTTATATATATCTGAAGAAAATGGGAGTTGTGCTTCTCAATGTCAAACTATCTGAGGCTGAGCAGTTGCTAATATGGTGTGTGTGTTTTTATTATGTTGCTACGTGGTTGCTAGTGTGTTCTGGGTTTTCTATTTAGGGTTAAAGGAGATGAGGAGACTTCTAATTATATGTATAAGCAACAGTAATGAGCATAGAAAAGACTGCTAATCATTGCCTTTAATGTCTCCTCCTTAACCCTGTTTGAAAGGTAAATTGCGGTTAGCATTCAAGTTGACATTTCACTCTGAACTCATTATGTTTCGCTGTTGATGATGCAGCTTTTATTCCTTTCACATTTGAGGATAACCATTTGATTGCGGCCTCTGGATGTAAGGGTCAGAATTTTTTGTTTCTTGCCTTATCCCTTCGTCTTATGTCCATTACTTTGTCTCTCCTCAG
Seq C2 exon
GGTCGTAACTGTGAGATTCCTATTAACGCCTGTATCAGCCTGCCATGTACCAATGGAGGCACGTGTCACCTCACACCTGGACTGGATGGACAGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000034268:ENSDART00000146299:26
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:
PF0000822=EGF=PU(87.5=66.7)
A:
NA
C2:
PF0000822=EGF=PD(6.2=6.1),PF0000822=EGF=PU(67.6=75.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATCTGAATCTGATGTCCAAGTGC
R:
TGTACTGTCCATCCAGTCCAGG
Band lengths:
215-1729
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]