RnoINT0132821 @ rn6
Intron Retention
Gene
ENSRNOG00000016512 | Sema3b
Description
semaphorin 3B [Source:RGD Symbol;Acc:1310079]
Coordinates
chr8:116359863-116360256:-
Coord C1 exon
chr8:116360099-116360256
Coord A exon
chr8:116359926-116360098
Coord C2 exon
chr8:116359863-116359925
Length
173 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCCA
5' ss Score
3.41
3' ss Seq
CCTGTGTTCCCTCCCCACAGCTG
3' ss Score
13.08
Exon sequences
Seq C1 exon
AACTACAGGCCCAGCATGGCATCCGAACCTTCAGGCTGGAGCGGACCTGCTGTTATGAAGCCTTGCTGGTGGATGAGGAGCGGGGGCGCCTGTTTGTGGGTGCTGAGAACCACGTGGCTTCCCTCAGCCTGGACAACATCAGCAAGCGAGCCAAGAAG
Seq A exon
GTGCCAGGGACCCCTAACCTTACTCAACTTCAGCGCCACCTCAGGAAAAAGCCTGAGGGTCCCAATCCAGATTGTCCAGACTCTAGAGAATCTCAAAGGGGTGGGCAAGTGAATGGAGAAACTCACAAAGTAAAGAGCACCCTGAGTCCCTAACCTGTGTTCCCTCCCCACAG
Seq C2 exon
CTGGCCTGGCCCGCCCCTGTGGAATGGCGTGAAGAATGCAACTGGGCAGGGAAGGACATTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016512:ENSRNOT00000066296:3
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:
PF0140314=Sema=PU(7.7=64.2)
A:
NA
C2:
PF0140314=Sema=FE(4.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTACAGGCCCAGCATGG
R:
AATGTCCTTCCCTGCCCAGTT
Band lengths:
218-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]