RnoINT0132927 @ rn6
Intron Retention
Gene
ENSRNOG00000025167 | Sema4b
Description
semaphorin 4B [Source:RGD Symbol;Acc:1307872]
Coordinates
chr1:142008472-142008988:+
Coord C1 exon
chr1:142008472-142008587
Coord A exon
chr1:142008588-142008821
Coord C2 exon
chr1:142008822-142008988
Length
234 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
CTTCATGTTTGGCTATGTAGGGA
3' ss Score
5.38
Exon sequences
Seq C1 exon
GTGATGGTCGCCTGCACAAGGCAGTGACCCTGGACTCCAGAGTGCACATCATTGAGGAGCTGCAGGTCTTCCCTCAAGGACAGCCTGTGCAGAACCTGCTCTTGGACAGCCATGGG
Seq A exon
GTGAGTGGGCCGTGGAATGAACTTGACCACTTTGATTGTCAACCAGCCAGCTTTACACCCCTTGTCAAAGCAAGATGGGAAGTTACAGAGCCCTGGCTTCTGACCATCAAAAGGATGTGTGGCAGATCTTGTCAGAGGTTCCCTGGGGTGACTAGTGACCATGTGAGGAGGGTAGTGTGACTGAGTGTCCTGGTGCCTGTGCCTCTCTCTTACTCTTCATGTTTGGCTATGTAG
Seq C2 exon
GGACTGTTGTATGCCTCCTCCCATTCTGGGGTAGTGCAAGTGCCCGTAGCCAACTGCAGCCTGTACCCAACCTGTGGAGACTGCCTCCTGGCTCGAGACCCTTACTGCGCCTGGAACGGCTCCACCTGCAAGCTCCTTAGTCTCTACCAGCCTGATCTGGCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025167:ENSRNOT00000030914:11
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(8.7=100)
A:
NA
C2:
PF0143720=PSI=PU(64.4=67.9)
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:
GTGATGGTCGCCTGCACAAG
R:
GGCTGGTAGAGACTAAGGAGCT
Band lengths:
268-502
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]