RnoINT0132826 @ rn6
Intron Retention
Gene
ENSRNOG00000016512 | Sema3b
Description
semaphorin 3B [Source:RGD Symbol;Acc:1310079]
Coordinates
chr8:116357310-116357665:-
Coord C1 exon
chr8:116357520-116357665
Coord A exon
chr8:116357422-116357519
Coord C2 exon
chr8:116357310-116357421
Length
98 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CCTTCTGATCCTGTGAGCAGAAT
3' ss Score
5.62
Exon sequences
Seq C1 exon
AACCCAAGTTTGTCAAGGTCTTTTGGATCCCAGAGAGCGAGAACCCTGATGACGATAAAATCTATTTCTTCTTCCGTGAGTCCGCAGTGGAAGCGGCACCAGCAATGGGGCGCATGACTGTGTCTCGTGTTGGTCAGATCTGCCGG
Seq A exon
GTAAGGAGACATTGGGCCAATTCATCCCTTGGCTACCTTTGCCCCTGACCCTTTGCCTGCTATGGTCTTGTTCTCATCCCTTCTGATCCTGTGAGCAG
Seq C2 exon
AATGACCTGGGTGGCCAGCGGAGCTTGGTCAACAAGTGGACCACATTTCTGAAGGCGCGGCTTGTATGCTCAGTACCTGGAGTTGAGGGTGACACCCACTTTGACCAACTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016512:ENSRNOT00000066296:8
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(10.8=100)
A:
NA
C2:
PF0140314=Sema=FE(8.4=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:
AGCGAGAACCCTGATGACGAT
R:
CGCCTTCAGAAATGTGGTCCA
Band lengths:
168-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]