RnoINT0143033 @ rn6
Intron Retention
Gene
ENSRNOG00000015396 | Sptan1
Description
spectrin, alpha, non-erythrocytic 1 [Source:RGD Symbol;Acc:621714]
Coordinates
chr3:8597805-8598176:+
Coord C1 exon
chr3:8597805-8598001
Coord A exon
chr3:8598002-8598122
Coord C2 exon
chr3:8598123-8598176
Length
121 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
TACTTTTGTTCTTCTTTTAGGAA
3' ss Score
10.98
Exon sequences
Seq C1 exon
CGCAAGCACCAGGAGATTCGGGCCATGAGAAGTCAGCTGAAGAAGATTGAGGACCTGGGGGCTGCCATGGAGGAAGCCCTCATCCTGGACAACAAGTACACTGAGCACAGCACTGTGGGCCTGGCCCAGCAGTGGGACCAGTTAGACCAGCTGGGCATGCGCATGCAGCACAACCTGGAGCAGCAGATCCAGGCCAG
Seq A exon
GTACCAGGGTGTGGACCAGAGTTGGGGGCCTAGAGCGCCATTGTTAACAAGGGTCTGGCACAGGAGGGGAAACAAGCCACTCCTGCATGGACCGCCTGCTCTACTTTTGTTCTTCTTTTAG
Seq C2 exon
GAACACAACAGGAGTCACTGAGGAGGCCCTCAAGGAGTTCAGCATGATGTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015396:ENSRNOT00000045827:52
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.299 A=NA C2=0.263
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(56.6=90.9)
A:
NA
C2:
PF134991=EF-hand_7=PU(16.0=63.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGCACCAGGAGATTCGG
R:
CATGCTGAACTCCTTGAGGGC
Band lengths:
242-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]