RnoINT0133057 @ rn6
Intron Retention
Gene
ENSRNOG00000045998 | Sema6b
Description
semaphorin 6B [Source:RGD Symbol;Acc:69278]
Coordinates
chr9:10941613-10942175:+
Coord C1 exon
chr9:10941613-10941948
Coord A exon
chr9:10941949-10942051
Coord C2 exon
chr9:10942052-10942175
Length
103 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
CCCTCCACTCCCTCCCCTAGACC
3' ss Score
10.22
Exon sequences
Seq C1 exon
ATTTCCTGAGAATTTTATGCACATGTGGTCTTAAAGTCGCTTGTTAATTAAACAACCTCTGAGCGTCATTATTATTATCAATGTTATTATTTTTATTCTGGAGGAAGAGAGGGACTCGCGCGCCCCCTAATGGCCTCTTATGGAACTGCAGGAAGCTCCACTCACTGGCCTTCTGGCTTGTAGGTGTTACCTGTGGTCACCTGGTCCTCACCATGTGGACCCCGCGAGCGCCCCCTCCACGCCCGGCCCTGCTGTTCCTCCTGCTGTTGCTTCTGAGGGTCACCCATGGCCTTTTCCCAGATGAACCACCTCCACTCAGTGTGGCTCCCAGGGACT
Seq A exon
GTGAGTCTGGGCGGGGGGCGGGGTGATGGGCAGGGGTGTGTCAGGGTCTCGGGTGGACAGGATCTTGTTCCCAAACGAATTCTCCCTCCACTCCCTCCCCTAG
Seq C2 exon
ACCTGAGCCACTACCCCGTGTTCGTGGGCAGCGGGCCTGGTCGTCTGACCCCTGCAGAGGGTGCTGAGGACCTCAACATCCAGAGAGTGCTACGTGTTAACAGGACACTGTTCATCGGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000045998:ENSRNOT00000070794:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.083
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0140314=Sema=PU(4.0=40.5)
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:
TGTTACCTGTGGTCACCTGGT
R:
AGCACTCTCTGGATGTTGAGGT
Band lengths:
243-346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]