DreINT0156704 @ danRer10
Intron Retention
Gene
ENSDARG00000076484 | stab1
Description
stabilin 1 [Source:ZFIN;Acc:ZDB-GENE-050208-554]
Coordinates
chr22:10287317-10287624:-
Coord C1 exon
chr22:10287545-10287624
Coord A exon
chr22:10287443-10287544
Coord C2 exon
chr22:10287317-10287442
Length
102 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TTTGCATATGTCATCCATAGAAA
3' ss Score
7.2
Exon sequences
Seq C1 exon
CTGTATTTCGGGAGATTCGGGAACTCCTCCAACTTGTTCCTGCACAGCTGGTTATAAGGGTAACGGGACTTCTTGTGAAG
Seq A exon
GTTTGTGTGTTTTCGTTTGAAGTTGGTTGTTTAAGTTAAAAATCACGTTCTTTATACACATTCCTAGTCTTAATGAGAAATATTTGCATATGTCATCCATAG
Seq C2 exon
AAATTAACCCATGTGCCGAAGACAATGGTGGATGTTCTGTAAACGCAAACTGTACTAAAACAGCACCCGGTGAAAGGACCTGCACATGTACAACCAACTACATTGGTGATGGGGTCATATGTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076484:ENSDART00000092050:41
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:
PF126622=cEGF=PU(85.0=60.7)
A:
NA
C2:
PF126622=cEGF=PD(10.0=4.7),PF129472=EGF_3=WD(100=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTCGGGAGATTCGGGAACT
R:
CGACACATATGACCCCATCACC
Band lengths:
202-304
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]