GgaINT0112656 @ galGal4
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:HGNC:18629]
Coordinates
chr1:54942944-54943293:-
Coord C1 exon
chr1:54943117-54943293
Coord A exon
chr1:54943034-54943116
Coord C2 exon
chr1:54942944-54943033
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TCTCTTTGCTTCCTTCCCAGATA
3' ss Score
10.06
Exon sequences
Seq C1 exon
AAAAACAAATTGCTTGGACTGATCCACGATCCCATTCACAAACCTGTGACACTCTTCTGGCCCACGGACACAGCTATCCGCAGGCTGCCCCAGGAGCAGCAGGACTTCCTCTTCAAGAAGTCCAACACAGACAAGCTGGTTCAGTATCTCAAATTCCACATTGTCCGCAATGCTGAG
Seq A exon
GTGAGACCTATGCTTTTTTAGAAGCATTGCCTAGGTTGAAACAAGTGAGTCTGAACACACACATCTCTTTGCTTCCTTCCCAG
Seq C2 exon
ATATTAGCCTACCAACTCCCCCGCTCCACCTTGCTGAAGACTCTGCAGGGCTCCAACCTCAGTGTTAGTTGCGAGGATAACAAAGAGATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:51
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:
PF0246917=Fasciclin=FE(43.6=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(21.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCTGTGACACTCTTCTGGC
R:
GAGTCTTCAGCAAGGTGGAGC
Band lengths:
180-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]