RnoINT0132895 @ rn6
Intron Retention
Gene
ENSRNOG00000017704 | Sema3f
Description
semaphorin 3F [Source:RGD Symbol;Acc:1308514]
Coordinates
chr8:116446521-116446870:-
Coord C1 exon
chr8:116446731-116446870
Coord A exon
chr8:116446636-116446730
Coord C2 exon
chr8:116446521-116446635
Length
95 bp
Sequences
Splice sites
5' ss Seq
CTCGTAAGT
5' ss Score
9.63
3' ss Seq
CAACCTGCCCCCGCCCCCAGAAC
3' ss Score
9.65
Exon sequences
Seq C1 exon
ATCCTTCATTCATACATGCTGAGCTCATCCCTGACAGCGCTGAGCGCAACGACGATAAACTCTACTTCTTCTTCCGAGAGCGCTCTGCAGAGGCTCCGCAGAACCCTGCGGTGTACGCCCGCATCGGGCGCATCTGCCTC
Seq A exon
GTAAGTGTCTATAAGGCTCGGCTGCCACTCCCCCGACCTGCCCCGGCTGGTCCTGGGGTGATTGATCTAATGTGTCAACCTGCCCCCGCCCCCAG
Seq C2 exon
AACGATGACGGTGGCCATTGCTGCCTGGTCAACAAGTGGAGCACATTCCTGAAGGCACGGCTCGTCTGCTCTGTGCCAGGCGAGGATGGCATTGAGACCCACTTCGATGAACTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017704:ENSRNOT00000024193:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(9.7=100)
A:
NA
C2:
PF0140314=Sema=FE(8.0=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:
CATGCTGAGCTCATCCCTGAC
R:
CTCCACTTGTTGACCAGGCAG
Band lengths:
167-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]