DreINT0155198 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13106556-13106877:+
Coord C1 exon
chr21:13106556-13106715
Coord A exon
chr21:13106716-13106800
Coord C2 exon
chr21:13106801-13106877
Length
85 bp
Sequences
Splice sites
5' ss Seq
TTGGTGCGT
5' ss Score
6.18
3' ss Seq
ATATGCTTTTGCCTGATCAGGTG
3' ss Score
8.54
Exon sequences
Seq C1 exon
GAGAACCACAATGTGGAGAACATCATGGCTAAAATGAAGGCGTTGCGTGGAAAAGTGTTGGAGCTGGAGAGAGCAGCGGCACAGAGGAAAGCCAAGCTGGATGAAAACTCTGCCTTCCTGCAGTTCAACTGGAAGGCTGATGTGGTGGAGTCCTGGATTG
Seq A exon
GTGCGTTGCTGGAAACTCACGCTAATGAGATTGGCTGGTAATAAACTGTTGCTGTTTTTTAATCCATATGCTTTTGCCTGATCAG
Seq C2 exon
GTGAGAAGGAAAACAGCCTGAAGACTGATGACTATGGTCGCGATCTCTCCTCTGTGCAGACGCTGCTCACCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(32.4=63.0),PF0043516=Spectrin=PU(16.0=31.5)
A:
NA
C2:
PF0043516=Spectrin=FE(23.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTTGCGTGGAAAAGTGTTGG
R:
CAGAGGAGAGATCGCGACCAT
Band lengths:
174-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]