RnoINT0132866 @ rn6
Intron Retention
Gene
ENSRNOG00000006631 | Sema3e
Description
semaphorin 3E [Source:RGD Symbol;Acc:1310973]
Coordinates
chr4:17338208-17338604:-
Coord C1 exon
chr4:17338563-17338604
Coord A exon
chr4:17338375-17338562
Coord C2 exon
chr4:17338208-17338374
Length
188 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
AACCTTCTTGTTTCCTGCAGCAA
3' ss Score
9.66
Exon sequences
Seq C1 exon
GATCCAGCCCCTATCATTTCTATGGAGATTTCTTCAAAGAGG
Seq A exon
GTAAGTTGCCTGCACGTCTGAGTCCTCTCTGTCTGTTAGTTAAAAACCAAAGTGTTTAACAATGTGAACATGTGACTTATGTGAGGAAAGGAGATGGCTCACTGTTTTCTGTTATTACTGTAGGAACCCAGGGGCTATTTCAGGGATCTCTGTAAAGTCACCTCTGCTAACCTTCTTGTTTCCTGCAG
Seq C2 exon
CAACAGCTCTATATTGGGTCAGCCTCTGCTGTGGCACAAGTCAGATTCCATCACTGTGACATGTACGGCAGCGCCTGTGCTGACTGCTGCCTGGCTCGAGACCCTTACTGTGCCTGGGATGGTATCTCCTGCTCCAGGTACTACCCGACAGGTGCACACTCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006631:ENSRNOT00000008936:13
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(67.9=67.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGCCCCTATCATTTCTATGGA
R:
TCTTTGAGTGTGCACCTGTCG
Band lengths:
206-394
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]