GgaINT0020606 @ galGal4
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:HGNC:18628]
Coordinates
chr12:624991-625528:+
Coord C1 exon
chr12:624991-625070
Coord A exon
chr12:625071-625402
Coord C2 exon
chr12:625403-625528
Length
332 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TCTCTTGTTTGCTATCACAGAAA
3' ss Score
6.68
Exon sequences
Seq C1 exon
CTGCCTGAATGCCTCCATGGATTCCCCACCTATGTGTTTCTGCTCTGCCGGATACACAGGGAATGGGACACACTGCACAG
Seq A exon
GTATGTCAAACGTGGCCAAGATTTAAGGCTTGCAAACATCTGTAGAGTCTGCACACATACAAAGGTTTTGCAAGAGAGAGACAAAAAGACAGGCAAGTGTAGCAGGGCAGTTCCTACTTCTTATAGAGAGAAATGCACGTGAGTGAATTGTACTTGTTCAGGTATAACAGTAAGAGTGACAAAGCTATAGTGGTTTTGGCCATTAATTCCTGTAATATGAATGCTTTGATTCCCTAAAATGTCACACTCCCCATACTTGTTGGCCATGCTGGCTCTGTTTATCTTCCCTAGATGCTCTAAGTTGGTTCTGCTTCTCTTGTTTGCTATCACAG
Seq C2 exon
AAATAGATCCATGCACTATCGATCATGGTGGCTGCTCCATACATGCTGTGTGTACTAAAGTGTCCCCAGGAGAGAGAACCTGTGTCTGCAAGGAAGGCTATGCTGGCGATGGGACGCTCTGCAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:43
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(69.4=89.3)
A:
NA
C2:
PF129472=EGF_3=WD(100=86.0)
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:
CTGCCTGAATGCCTCCATGG
R:
CCCTGCAGAGCGTCCCATC
Band lengths:
206-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]