GgaINT0020594 @ galGal4
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
stabilin 1 [Source:HGNC Symbol;Acc:HGNC:18628]
Coordinates
chr12:616838-617408:+
Coord C1 exon
chr12:616838-616954
Coord A exon
chr12:616955-617296
Coord C2 exon
chr12:617297-617408
Length
342 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGA
5' ss Score
10.03
3' ss Seq
TCTGCCTGCATTCCCTTCAGGGC
3' ss Score
11.38
Exon sequences
Seq C1 exon
CATCCCAGCAGGAACCAATGTCACTGTCCTGGTGCCATCAGAGGAAGCTATCAAAAGCTTGAACAGCAGTGAGAAAGATTTCTGGCTGACCCCCTACATGCTGCCATTTCTAGTCAG
Seq A exon
GTACGAGGAGAGTCCTGCCTTTGCATTCCTATGCCTGACAACAGTAAGAAAATTGTATGTGCTCTGTAAAGAGTTATGGAGAGATAAACACAGAAACATGGTTAAATGTACAGCGGGCAAATAATATAGTAGGTATTTGGACTGTAACAGAGCTCAGGCAATTGGAAGTGGATTTATTTTTCGTGTATGTGCAGGGAGAGATTTTCCCTGTCATAAGGATGTGTAAGGCCAAGTAATTCCTTGTCATTCTCACCACATGCTTACCTACTTCGTATGAGAGATACGTGAATGTTAGGTGAGATGACCTGATCTCCATGTTTTATCTGCCTGCATTCCCTTCAG
Seq C2 exon
GGCCCACTTTCTTGAAGGTGTCTTCACTGATGAAAAGCTCAAAAAGTACGACAGGCCAGAATTACCCACCCTCAACCCACGGACCAGATGGCAGATAAACACTGAGAGCGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:31
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=0.053
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=FE(31.7=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(30.1=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:
CCAGCAGGAACCAATGTCACT
R:
CCGCTCTCAGTGTTTATCTGCC
Band lengths:
224-566
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]