DreINT0156740 @ danRer10
Intron Retention
Gene
ENSDARG00000045748 | stab2
Description
stabilin 2 [Source:ZFIN;Acc:ZDB-GENE-041210-336]
Coordinates
chr4:10745789-10746291:+
Coord C1 exon
chr4:10745789-10745920
Coord A exon
chr4:10745921-10746162
Coord C2 exon
chr4:10746163-10746291
Length
242 bp
Sequences
Splice sites
5' ss Seq
AGAGTGCGT
5' ss Score
3.85
3' ss Seq
TTGGGATTTTTCTATCGTAGTTG
3' ss Score
4.64
Exon sequences
Seq C1 exon
GATTTGAATGTGACCATGTATCACATTATACTGACTGAGATTTTAAAAGACGTAGATTTGGTGGATGGACTGTACAAGGACACCATGCTGGGCTTCCAATACCAACTGGGATTTTTCCGTCAAGATAAGAGA
Seq A exon
GTGCGTGCCAGATATGTTAATGTTTGCTGTCGGTTCAAACTACTTCTATAAAATAATAAGCCATTTGTTGAGTTTTTAGAGATTAAATTGAGCTTATTAAGCCAATATTTGAGTTTATTTTGGGACAGCTTATTTGTTTTATGTTCAATCTAACAACTTAAATGTCTTCATGTTGTCGCAACACAACTCATTTCTGTCATAAATATTTAATCATTGATATATTTGGGATTTTTCTATCGTAG
Seq C2 exon
TTGCTTGTAAATGAGGCTGAGGTGAATGTGACAGACTTGGAGACCAGTAAAGGCGTCATTCACATCATATCTGCTGTCCTCAACATCCCCAGCAATCGCTGTGACAAAGCTACCAGTATTCTTTTCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045748:ENSDART00000136000:34
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(35.5=100)
A:
NA
C2:
PF0246917=Fasciclin=PD(24.0=67.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACCATGTATCACATTATACTGAC
R:
CGAGAAAAGAATACTGGTAGCTTTGT
Band lengths:
252-494
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]