GgaINT0077297 @ galGal4
Intron Retention
Gene
ENSGALG00000014419 | SLIT2
Description
slit homolog 2 protein precursor [Source:RefSeq peptide;Acc:NP_001254004]
Coordinates
chr4:74600404-74600768:-
Coord C1 exon
chr4:74600697-74600768
Coord A exon
chr4:74600476-74600696
Coord C2 exon
chr4:74600404-74600475
Length
221 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
AGTAATGTGTATGTTTTCAGAAT
3' ss Score
5.81
Exon sequences
Seq C1 exon
AGATTTAAGTAACAACAGAATCAGCACTCTTTCTAATCAGAGCTTCAGCAACATGACTCAGCTGCTCACCTT
Seq A exon
GTAAGTTTAAACATGTAACATTGACACTTTTAAAACATTGCAGTGTTTTTTGTCTTGAAAGAAGGGGCATTTTGTTGATATTAAAGCTTGCTTTTTGTAGAGGCTGTAAAATAACTTGTTTCCTAACGAGCTATGTGTGCAAAAGCTGTTTATGGTCATGCTCTGCATTCTGTTTACTGAATGCTTGATTCACTTGCTGACAGTAATGTGTATGTTTTCAG
Seq C2 exon
AATTCTTAGTTACAACCGCCTGAGGTGTATCCCTGCACGGACTTTTGATGGGTTGAAATCACTTAGGTTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014419:ENSGALT00000037322:22
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(38.6=68.0),PF138551=LRR_8=PU(8.2=20.0)
A:
NA
C2:
PF138551=LRR_8=FE(39.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTAAGTAACAACAGAATCAGCACTCT
R:
AGCAACCTAAGTGATTTCAACCCA
Band lengths:
140-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]