RnoINT0132926 @ rn6
Intron Retention
Gene
ENSRNOG00000025167 | Sema4b
Description
semaphorin 4B [Source:RGD Symbol;Acc:1307872]
Coordinates
chr1:142008152-142008587:+
Coord C1 exon
chr1:142008152-142008362
Coord A exon
chr1:142008363-142008471
Coord C2 exon
chr1:142008472-142008587
Length
109 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
AGTCATGTTCCTGATTCCAGGTG
3' ss Score
7.04
Exon sequences
Seq C1 exon
TGTATCACCAACAGTGCCCGGGAACGGAAGATCAACTCGTCGCTGCAGCTCCCGGACCGAGTGCTGAACTTCCTCAAGGATCACTTCTTGATGGATGGGCAGGTCCGCAGCCGCCTGCTGCTGCTCCAGCCACAAGCCCGCTACCAGCGTGTGGCCGTGCACCGAGTGCCTGGCCTGCACAGCACGTATGATGTACTATTTCTGGGCACTG
Seq A exon
GTGAGTGCTAGCAGTCCCCAGGATCGGGTTAAGGACGGGAATGCATATGTGACTGGCAGATCCTGGGCAGTGAGTTCTGCCAGGGCCTAAGTCATGTTCCTGATTCCAG
Seq C2 exon
GTGATGGTCGCCTGCACAAGGCAGTGACCCTGGACTCCAGAGTGCACATCATTGAGGAGCTGCAGGTCTTCCCTCAAGGACAGCCTGTGCAGAACCTGCTCTTGGACAGCCATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025167:ENSRNOT00000030914:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(16.0=100)
A:
NA
C2:
PF0140314=Sema=FE(8.7=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:
AAGATCAACTCGTCGCTGCAG
R:
AGACCTGCAGCTCCTCAATGA
Band lengths:
253-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]