RnoINT0143034 @ rn6
Intron Retention
Gene
ENSRNOG00000015396 | Sptan1
Description
spectrin, alpha, non-erythrocytic 1 [Source:RGD Symbol;Acc:621714]
Coordinates
chr3:8598123-8598403:+
Coord C1 exon
chr3:8598123-8598176
Coord A exon
chr3:8598177-8598256
Coord C2 exon
chr3:8598257-8598403
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CTCTGGGCTCTGTGTTGCAGACA
3' ss Score
8.98
Exon sequences
Seq C1 exon
GAACACAACAGGAGTCACTGAGGAGGCCCTCAAGGAGTTCAGCATGATGTTCAA
Seq A exon
GTGAGTGTGACCCAGGTACCCTGGCTCAGAGTGGCTGGGTGACAGGGACCATGTGCTGAGCTCTGGGCTCTGTGTTGCAG
Seq C2 exon
ACACTTCGACAAGGACAAGTCTGGCCGGCTGAATCATCAAGAGTTCAAATCCTGCCTTCGTTCTCTGGGTTACGACCTGCCAATGGTTGAGGAAGGAGAGCCTGATCCTGAGTTTGAGGCCATACTGGACACTGTTGATCCCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015396:ENSRNOT00000045827:53
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.263 A=NA C2=0.340
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PU(16.0=63.2)
A:
NA
C2:
PF134991=EF-hand_7=FE(65.3=100)
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:
AACAGGAGTCACTGAGGAGGC
R:
GCCTCAAACTCAGGATCAGGC
Band lengths:
168-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]