RnoINT0143011 @ rn6
Intron Retention
Gene
ENSRNOG00000015396 | Sptan1
Description
spectrin, alpha, non-erythrocytic 1 [Source:RGD Symbol;Acc:621714]
Coordinates
chr3:8579461-8579866:+
Coord C1 exon
chr3:8579461-8579560
Coord A exon
chr3:8579561-8579668
Coord C2 exon
chr3:8579669-8579866
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
AATCCCTTCTCTCTTGGCAGGAA
3' ss Score
10.27
Exon sequences
Seq C1 exon
GGACCTCATGTCTTGGATCAATGGAATACGAGGGTTGGTATCTTCAGATGAACTGGCCAAGGATGTCACTGGAGCTGAGGCTTTGCTGGAGCGACACCAG
Seq A exon
GTAGGTCCCGCTGGCCCAGTGGCCTTACCCGTCCCCATGTTGGGAACCAGGGCTTGACACTAGCGCGGGCATCTTCAGCAAGTTACTTAATCCCTTCTCTCTTGGCAG
Seq C2 exon
GAACACCGGACAGAAATTGATGCCAGGGCTGGCACTTTCCAGGCATTTGAGCAGTTTGGGCAGCAGCTGTTGGCTCATGGGCACTATGCCAGCCCAGAGATCAAGGAGAAACTTGATATTCTTGACCAGGAGCGCACAGACCTGGAGAAGGCCTGGGTTCAGCGCAGAATGATGCTGGACCACTGCCTGGAGTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015396:ENSRNOT00000045827:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.265 A=NA C2=0.061
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
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATGAACTGGCCAAGGATGT
R:
GCAGTGGTCCAGCATCATTCT
Band lengths:
242-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]