DreINT0152376 @ danRer10
Intron Retention
Gene
ENSDARG00000044954 | slit1a
Description
slit homolog 1a (Drosophila) [Source:ZFIN;Acc:ZDB-GENE-030722-3]
Coordinates
chr13:435244-435781:-
Coord C1 exon
chr13:435684-435781
Coord A exon
chr13:435384-435683
Coord C2 exon
chr13:435244-435383
Length
300 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GTGCATTTGTGTTTCCTCAGCTG
3' ss Score
7.46
Exon sequences
Seq C1 exon
GGTAAGAACTGTGAGACGGTGGTGAACGCGTGTGTCAGTGAGCCGTGTAAGAACGGAGGAACGTGTCACGTGTCCACAGACGAGGATGAAGGATACAG
Seq A exon
GTGAGGGCGTCTCAGCATCATCATGCTCTAATGTGTGAATCAGCTGCAAACTATTAGTGCACAAGGGGCCGAACACACAGAACCTGCTTTAAAAGTTGCTGAATGCTCATAAATATACTCTCATTTCAGTGTAATAAGCAAGTAACCATGCTGCTGTACCATGCATGTCTTAAATCTCACATACCTCACATCTTTCTGAGCTAAACTATGGTCTGGAGTCATTGTGAAAGTGTTAATGCCCTCACACACTGCATCAACATCACAACCCCTATCTAACGCAGTGCATTTGTGTTTCCTCAG
Seq C2 exon
CTGTTCGTGTGCTGCTGGTTTTGAAGGTCCCTCATGTGAGGTGGACACTGACGAGTGTAGAGATAATGACTGTCAGAACGGAGCCACCTGCATTGACGGCATCAACAATTACACATGTCTGTGCGCCCCGTTCTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044954:ENSDART00000128969:28
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=PD(6.2=6.1),PF0000822=EGF=PU(64.7=66.7)
A:
NA
C2:
PF0000822=EGF=PD(32.4=22.9),PF0000822=EGF=PU(93.3=58.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTAAGAACTGTGAGACGGTGG
R:
CTGTGTAGAACGGGGCGC
Band lengths:
238-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]