RnoINT0143027 @ rn6
Intron Retention
Gene
ENSRNOG00000015396 | Sptan1
Description
spectrin, alpha, non-erythrocytic 1 [Source:RGD Symbol;Acc:621714]
Coordinates
chr3:8593912-8594771:+
Coord C1 exon
chr3:8593912-8594121
Coord A exon
chr3:8594122-8594474
Coord C2 exon
chr3:8594475-8594771
Length
353 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ATTTGCCCTTCTACTTCTAGGTA
3' ss Score
12.12
Exon sequences
Seq C1 exon
GAGACATTTGATGCTGGCCTGCAGGCCTTCCAGCAGGAGGGCATTGCCAATATCACTGCCCTCAAAGACCAGCTGCTAGCTGCCAAGCACATTCAGTCGAAGGCCATCGAGGCCCGACATGCCTCCCTCATGAAGAGGTGGACCCAGCTGTTGGCCAATTCAGCTACCCGCAAGAAGAAGTTGCTAGAGGCCCAGAGTCATTTCCGAAAG
Seq A exon
GTAAGGGTAAGAGTCATCTGGCCAGTATAGTGGACAGTAGACCCATGTGCCTCTGCCTGGCTGTGCCATCACCCTGTGAGGAAGAAGTAACCTCAGCCCAAAGGAGTTGAACGTGGCACCAAAGTCAGTGGAACCCGAGGCACGTGGAGTCCTTGAACTTGCCCTGGAGAATTTATCCTTGACCCTCCCAGGATGAGCACAGCTTGTGCCAGGGAGCGGCAGGCAGAGGACAAGTTGGGAAGATTGTGAGATGGGGCAGAGAGACAGACCCGCAGCAGGCGCTACTCTGATTCCCAGAAACTTCCTCACCCACAAACGTGCCCACCACTGACAATTTGCCCTTCTACTTCTAG
Seq C2 exon
GTAGAAGACCTCTTCCTGACCTTTGCCAAAAAGGCATCGGCTTTCAACAGCTGGTTTGAGAATGCAGAAGAGGACCTCACAGACCCAGTGCGCTGCAACTCTCTGGAAGAAATCAAAGCCCTCCGAGAGGCTCATGATGCCTTCCGCTCATCGCTCAGCTCTGCGCAGGCCGACTTCAACCAGCTAGCCGAGCTGGACCGTCAGATCAAGAGTTTCCGAGTGGCCTCCAATCCCTACACCTGGTTCACCATGGAGGCCCTGGAAGAGACGTGGAGGAACCTACAGAAGATCATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015396:ENSRNOT00000045827:47
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(58.5=88.6)
A:
NA
C2:
PF0043516=Spectrin=PU(91.4=97.0)
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:
TGCCAAGCACATTCAGTCGAA
R:
GAGGCCACTCGGAAACTCTTG
Band lengths:
357-710
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]