DreINT0155183 @ danRer10
Intron Retention
Gene
ENSDARG00000019231 | spna2
Description
spectrin alpha 2 [Source:ZFIN;Acc:ZDB-GENE-051113-60]
Coordinates
chr21:13091348-13091727:+
Coord C1 exon
chr21:13091348-13091447
Coord A exon
chr21:13091448-13091529
Coord C2 exon
chr21:13091530-13091727
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
GACATGTTCACATTGTGTAGGAA
3' ss Score
5.66
Exon sequences
Seq C1 exon
AGATCTCATGTCTTGGATCAATGGAATCAGGGGACTTGTGTCTTCCGATGAGCTGGCCAAGGATGTTACTGGTGCTGAAGCCCTGTTGGAGAGACATCAG
Seq A exon
GTGCGTAAAAACACCTATACAGCATTGCAGAAGAGTTTTCCTTAACATCTTTTTAATACACTGACATGTTCACATTGTGTAG
Seq C2 exon
GAACACCGCACTGAGATCGACGCTCGTGCAGGAACCTTCCTGGCTTTTGAGCAGTTTGGACAGCAGCTGCTCGCTCGTGGGCATTACGCAAGCCCTGAGATCAAACAGAAGCTGGAGGCTCTTGACCGGGAGCGTGCTGACCTGGAGAAGGCCTGGGTTCAGCGCAGGATGATGCTGGACCAGTGCCTGGAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019231:ENSDART00000102251:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(31.4=100)
A:
NA
C2:
PF0043516=Spectrin=PD(57.1=90.9),PF0043516=Spectrin=PU(2.9=4.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGGACTTGTGTCTTCCGAT
R:
ATCTCAGGGCTTGCGTAATGC
Band lengths:
173-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]