GgaINT0112668 @ galGal4
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:HGNC:18629]
Coordinates
chr1:54932657-54933186:-
Coord C1 exon
chr1:54933080-54933186
Coord A exon
chr1:54932777-54933079
Coord C2 exon
chr1:54932657-54932776
Length
303 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGG
5' ss Score
9.4
3' ss Seq
TGGATTTTGTTTCTGCCCAGAAA
3' ss Score
6.26
Exon sequences
Seq C1 exon
AGGTGAACTGCACCTGCAAGCCAGGCTACGTGGGGGATGGCTCTTCCTGCAGTGGGAACCTGCTGCAAGTGCTGATGTCCTTCCCCACGCTCACAAACTTCCTGGAG
Seq A exon
GTACGGCCTGCCACGGGCACAGGGATAACTGGGCTGTCCCAGCACCCAAACACTGTCATAGGTTCATAGAACCACCAAGGTTGAAAAAGACCTCCAAGATCATCCAGTCCAACTATCCACCTACCACCAGTATTTTCCCACTCAACTATGTCCCTTAGTACCTTAGTACTGGCTGTTGTCCACAGCAACAGTGTCCACAGCCAGTGTAGGGGACAGAAAGTGAGGCCTCTTTGCTGCTACTCATATGACATCATTTTATCTCACAATTGCCTTTCACTAAAGCTGGATTTTGTTTCTGCCCAG
Seq C2 exon
AAAATCATGGCTTACTCCAACAGCTCTCGGAAAGGGAGAGCATTCCTGCGGTACCTCACCGACCTGTCAGTGCGTGCCACACTCTTCGCTCCAAATGACAGTGGACTAAGGGAAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:63
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:
PF129472=EGF_3=PD(72.7=44.4),PF0246917=Fasciclin=PU(6.6=25.0)
A:
NA
C2:
PF0246917=Fasciclin=FE(28.7=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:
CTGCAAGCCAGGCTACGTG
R:
CTGATTTTCCCTTAGTCCACTGTCA
Band lengths:
214-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]