GgaINT0112667 @ galGal4
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:HGNC:18629]
Coordinates
chr1:54933080-54933494:-
Coord C1 exon
chr1:54933329-54933494
Coord A exon
chr1:54933187-54933328
Coord C2 exon
chr1:54933080-54933186
Length
142 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCTGTGTTTGTGCATTCCAGAGG
3' ss Score
8.22
Exon sequences
Seq C1 exon
GCACGGTACCACCTGTGTGCAGCCGGCTGGCTGGATGGCCAAAGGGTGGGCTACCCTACTGCCTTCTCATCACCAAACTGCGGCGCTGGGTACGTCGGCATCGTGGACTATGGGAGAAGGGTCAACCTGAGTGAAACATGGGATGTCTTCTGCTACAGGGAAAAAG
Seq A exon
GTGAGAATGGCCATCTCAGCCTCACTGCAAAGGGGAGCAGCAGCCCTGTTTTGAGTACTTTTGGCAGGCAAGAACAAGGAGACCCAAAACCACCTAGAAAAGGGCACCGGCCCACACTGCTGTCTGTGTTTGTGCATTCCAG
Seq C2 exon
AGGTGAACTGCACCTGCAAGCCAGGCTACGTGGGGGATGGCTCTTCCTGCAGTGGGAACCTGCTGCAAGTGCTGATGTCCTTCCCCACGCTCACAAACTTCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:62
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:
PF0019312=Xlink=PD(54.3=91.1),PF129472=EGF_3=PU(22.7=8.9)
A:
NA
C2:
PF129472=EGF_3=PD(72.7=44.4),PF0246917=Fasciclin=PU(6.6=25.0)
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:
GTACCACCTGTGTGCAGCC
R:
GGGGAAGGACATCAGCACTTG
Band lengths:
247-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]