RnoINT0133067 @ rn6
Intron Retention
Gene
ENSRNOG00000045998 | Sema6b
Description
semaphorin 6B [Source:RGD Symbol;Acc:69278]
Coordinates
chr9:10943491-10943989:+
Coord C1 exon
chr9:10943491-10943592
Coord A exon
chr9:10943593-10943898
Coord C2 exon
chr9:10943899-10943989
Length
306 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
AGATTCTGTCCTCCCTGCAGATG
3' ss Score
11.19
Exon sequences
Seq C1 exon
GGTGAGTGTCGGAACTTTGTCAAGGTGCTCCTGCTTCGTGACGAATCCACGCTCTTCGTGTGCGGCTCCAATGCATTCAATCCCATCTGTGCCAATTACAGT
Seq A exon
GTGAGTCTCAGCTCTCAAGACCCCAAGAATCTTCTTCGCCCTCCATCTATCCTGTGCTTCCTCTCAGCCACACACACCCCTATACGAGGTTTTTCAGGCTTATCTCCCTTGTCTTCCAAGTCTGATTACAATAAACTCGGGCCCATTCACAGACCAGAAAACTGAGGCCCTGAGAGGTTAATTGCCTGGCCAGAATCACACAGCAATACAGTATGAAGCTAGGGTTCTGCTTGGAGTGGAGGACTGGGGAAGGCTGGAGCTACCAGGCAGAGTGAGACGTATTCTTAGATTCTGTCCTCCCTGCAG
Seq C2 exon
ATGGACACACTGCAGCTTCTTGGAGACAACATCAGTGGTATGGCCCGCTGCCCCTACGACCCCAAGCATGCCAATGTCGCCCTCTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000045998:ENSRNOT00000070794:5
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(7.8=100)
A:
NA
C2:
PF0140314=Sema=FE(7.1=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:
GGTGAGTGTCGGAACTTTGTCA
R:
CTGAGAAGAGGGCGACATTGG
Band lengths:
193-499
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]