RnoINT0143029 @ rn6
Intron Retention
Gene
ENSRNOG00000015396 | Sptan1
Description
spectrin, alpha, non-erythrocytic 1 [Source:RGD Symbol;Acc:621714]
Coordinates
chr3:8594905-8595385:+
Coord C1 exon
chr3:8594905-8595017
Coord A exon
chr3:8595018-8595367
Coord C2 exon
chr3:8595368-8595385
Length
350 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCCT
5' ss Score
5.39
3' ss Seq
GGACACTTGGATCGCCATAGAAC
3' ss Score
2.21
Exon sequences
Seq C1 exon
GAGCGAGAACTGGAGCTGCAGAAGGAACAGCGGCGGCAGGAGGAGAATGACAAGCTACGCCAAGAGTTTGCCCAGCATGCCAACGCGTTCCACCAGTGGATCCAGGAAACAAG
Seq A exon
GTGCCTGCCCTCTGGGGCTAGCCAGGGAACATGGTGCCCCTTTGCAGCTGCATGCCAAGCCTCTAGGGAGCTTGTTAGAGACCTGGTGGGTGGGGGGCTGCTTGGACGAGGACTGTCATGTCTGATTGGGTCCAAAGCAAACGTGGGCTCAGCACGGTTCATTTCACCAAGGGTGATGTTGGCACTTGCCCCAAGTGAGGTAGAACAACTGCCCGAGGCCCCGTCATCCTGGCACCCAGGCTTGGGCAGAAGAGTACTAATGTCCTGTATTTTGTTCTCTCTTCTACATCGTCCCGATTGCTGCTGTGTGTGGATACTGCCATGGCTCCTGGACACTTGGATCGCCATAG
Seq C2 exon
AACGTATCTCCTCGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015396:ENSRNOT00000045827:49
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(6.7=18.4),PF0043516=Spectrin=PU(18.9=52.6)
A:
NA
C2:
PF0043516=Spectrin=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]