GgaINT0112669 @ galGal4
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:HGNC:18629]
Coordinates
chr1:54931630-54932776:-
Coord C1 exon
chr1:54932657-54932776
Coord A exon
chr1:54931789-54932656
Coord C2 exon
chr1:54931630-54931788
Length
868 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGG
5' ss Score
3.33
3' ss Seq
TATTTCTTTTTGATTTTCAGACA
3' ss Score
8.71
Exon sequences
Seq C1 exon
AAAATCATGGCTTACTCCAACAGCTCTCGGAAAGGGAGAGCATTCCTGCGGTACCTCACCGACCTGTCAGTGCGTGCCACACTCTTCGCTCCAAATGACAGTGGACTAAGGGAAAATCAG
Seq A exon
GCAAGGGTGCTTTCCCTTTTCTTTCTTCATTTTAATAGCACTTTCTAAACAGCCACTCGTGGGTTTCTCTATCTTGATGGCATCTCAGTTAAAAAAACAGTCTTTGTATGGCACAATTTCTTTGTAATCCCATATCGTTTGAACTGTGCTTCTGGAAGAGTTAATTTCACACTCTCTGCTTTCCTTCTGTAGCCAGGAATACCAAGTTACTGAAAGTCTGAGTCACTCCAGAGAATTTTTCCATCAGGGATTTTAGTCACCCAGCTGTAAAGGTGTCTGTCTGACATGAAATCTCCCCTGGCTTCATTAAGCTCAGTTATTCAAAGAAAGCAGTACTTTTGATATTTCTTGCAATGCTTTAAAGAAAGCTGGTCCTAGCTTCATTCCCATGCCTGTCCTTTTTTCCTTCCTTCCATCAAACATTGCCTCCAACAGCTGAGGTGCAACCCCAGCCACAGAGATGAGGTCAGGACTTCTCGTCCTGTCCCAGAGTGATAAGTCACTCAGGTATAAGGCTGTGCACTTATTAAAAGCAGCACACTGGAGATTTCAGATCCTATGAGTTTAAGCTCTGCCTTGCATCAGGCTATTTTGAGTATCTCCAAGGCTCATCACTTCAGGTTGCAAGAGAGTAAAATCCTTTGTGCCAGCACAGCCAAGATGCAGCCTGCAGCAGCCAAAGGCCAGCAAGGTCAGAGGATCTTCCCCACTGTTCACACGCAGGTTTCTCAATAGACCCTGTCCTGTGTTGCACTTGCTGAAACATTAATAGCAGAGAGGAAAAGGGTCACAGGCACTCTGGCTGGGGGTAAATCCCGTGGATTAAAGAGACTGATTAACATTCCTTGTATTTCTTTTTGATTTTCAG
Seq C2 exon
ACACTTTCCGGTCGAGACATTGAGTATCATTTATCTAATGCCAGTATCATGTTTTACGAAGACTTGACCAATGGAACCACTCTCCTGACTCGTCTCGGGGAAAAACTCCTAATTACAGACAACGGGGGAAAAGAATACCAAGCTCCTTCCACTGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:64
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=0.208
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=FE(28.7=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(38.2=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:
AAATCATGGCTTACTCCAACAGCT
R:
CTGTTCAGTGGAAGGAGCTTGG
Band lengths:
278-1146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]