DreINT0156748 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10750061-10750434:+
Coord C1 exon
chr4:10750061-10750186
Coord A exon
chr4:10750187-10750357
Coord C2 exon
chr4:10750358-10750434
Length
171 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
ATGTGTGCATCTTCCTTAAGCCA
3' ss Score
4.31
Exon sequences
Seq C1 exon
CTATAGATGCATGTGCAGAGAGGAATGGAGGTTGCTCAGCCCATGCGGTGTGCAAGCGCACTCTTCCCGGAAGGAGAATATGCATGTGCCATCCAGGTTATGCAGGCGATGGAAATGTTTGCACTT
Seq A exon
GTAAGTGTGAATGTGTACTTCTACAGTTAGTTTTTATGGGGGTGTACATAATTAATACTATAGTTAACTATTTGCAACATTTCCATTAACATGTTTGATGATTAAAATACTCCATCTCAATTTTACTGTTACATTGTATTTTAATATTTTAATGTGTGCATCTTCCTTAAG
Seq C2 exon
CCATCAATCCATGCCTGGATGGTGTAAATGGAGGATGCCATGCGGATAGTAACTGCATTCATACAGGCCCTAATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:42
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=PD(9.5=4.7),PF129472=EGF_3=WD(100=86.0)
A:
NA
C2:
PF129472=EGF_3=PU(55.3=80.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATGTGCAGAGAGGAATGGA
R:
TTATTAGGGCCTGTATGAATGCAGT
Band lengths:
194-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]