RnoINT0132816 @ rn6
Intron Retention
Gene
ENSRNOG00000016512 | Sema3b
Description
semaphorin 3B [Source:RGD Symbol;Acc:1310079]
Coordinates
chr8:116355437-116355859:-
Coord C1 exon
chr8:116355818-116355859
Coord A exon
chr8:116355595-116355817
Coord C2 exon
chr8:116355437-116355594
Length
223 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
GAGACTCTTGTGCCCTTTAGCAC
3' ss Score
4.49
Exon sequences
Seq C1 exon
GACTCTGCTGCTATCACCAGCATGCAAATCTCCTCGAAAAGG
Seq A exon
GTGAGTAACTCAACTTGGGGAGGAACTGAATTTGTCCCACAGCACCTGAGTTGTCTTGTTTCTCTTCGGTTTTCAAAGCCCAGAGTTTCAGGTCTAGCTTCTTTTTGCTAGACAATGAGACCTCAGTGTTCCCACATGTCCAATGGGGGGAAATGGCTATTTGACTGAAGGGAGCCAGGTAAGGGATGTCCTCAATCAGACTGGAGACTCTTGTGCCCTTTAG
Seq C2 exon
CACCAGCTCTACATAGCATCACCCAGCGCAGTGGCCCAGATTGCTTTACATCGCTGCCCTGCCCTAGGCCGCGCCTGCGCAGAATGCTGCTTGGCCCGTGACCCCTACTGCGCCTGGGATGGATCAGCCTGCACACGCTTCCAGCCTACTGCCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016512:ENSRNOT00000066296:14
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=FE(2.9=100)
A:
NA
C2:
PF0143720=PSI=PU(57.4=66.0)
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:
GACTCTGCTGCTATCACCAG
R:
CTCTTGGCAGTAGGCTGGAAG
Band lengths:
200-423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]