RnoINT0132894 @ rn6
Intron Retention
Gene
ENSRNOG00000017704 | Sema3f
Description
semaphorin 3F [Source:RGD Symbol;Acc:1308514]
Coordinates
chr8:116446731-116447188:-
Coord C1 exon
chr8:116447069-116447188
Coord A exon
chr8:116446871-116447068
Coord C2 exon
chr8:116446731-116446870
Length
198 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
AGCCACCTGTCTACCCACAGATC
3' ss Score
9.71
Exon sequences
Seq C1 exon
ATGAGGAGCTCTACGCAGGAGTGTACATCGATTTTATGGGCACTGATGCAGCCATTTTCCGTACGCTTGGAAAGCAGACAGCCATGCGCACAGATCAGTACAACTCCCGGTGGCTCAATG
Seq A exon
GTGAGCGCTGCCCTGCAAGACATTAGGGGGAAGTGTGGCCAGATGTGCAGAGACTTCTGTCAGAACATGCCTGGGGGAGAGTTTAAGCCCGTGACTAGTCCGGGGCAGGGCTGGTTTTCTCTCGGGGATTCTGGTGGGGGGGGAGAAGCCTCGCTAGGGTTCTTGCTGCTGACCCCCTAGCCACCTGTCTACCCACAG
Seq C2 exon
ATCCTTCATTCATACATGCTGAGCTCATCCCTGACAGCGCTGAGCGCAACGACGATAAACTCTACTTCTTCTTCCGAGAGCGCTCTGCAGAGGCTCCGCAGAACCCTGCGGTGTACGCCCGCATCGGGCGCATCTGCCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017704:ENSRNOT00000024193:8
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=0.021
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(8.5=100)
A:
NA
C2:
PF0140314=Sema=FE(9.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCTCTACGCAGGAGTGTA
R:
GAGGCAGATGCGCCCGAT
Band lengths:
256-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]