RnoINT0132990 @ rn6
Intron Retention
Gene
ENSRNOG00000014650 | Sema4g
Description
semaphorin 4G [Source:RGD Symbol;Acc:1310436]
Coordinates
chr1:264742490-264742931:+
Coord C1 exon
chr1:264742490-264742638
Coord A exon
chr1:264742639-264742868
Coord C2 exon
chr1:264742869-264742931
Length
230 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
TGTCCCTTTACTCTCACTAGATC
3' ss Score
8.97
Exon sequences
Seq C1 exon
AGCTCTCCTGGATCAGGCACTTCAAGGGCCAAGCCCAGAACTATTCAACACTGCTGCTGGAGGAGGCTTCCCAAAGGCTGTTGGTGGGAGCTCGAGGTGCCCTGTTCTCTCTCAGTGCCCGTGACATAGGAGATGGGACTCACAAAGAG
Seq A exon
GTCAGCCCCTGGCATCTGGGCCAACCACAGGGTCTCCAGCTTCCTGGGACCTCAGTTACCTGGACACCTGCCCCTCAGCCTTCCAACCTCAGGACAGCACTGTCCTTTCTAGCCCAGGGCTCCTTTTGAAATCCACCACACTTCCCCCGTACTCTGGAGCAACACTGTTTGATTCTCCGGGTGGTGGATATTGAGGTCAACTTAGCAGTCTGTCCCTTTACTCTCACTAG
Seq C2 exon
ATCCACTGGGAGGCCTCCCCAGAGATGCAAAGCAAGTGTCATCAGAAAGGGAAAAACAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014650:ENSRNOT00000019956:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.635
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(48.6=70.0)
A:
NA
C2:
PF0140314=Sema=FE(27.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGATCAGGCACTTCAAGGG
R:
TGGTTGTTTTTCCCTTTCTGATGAC
Band lengths:
204-434
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]