RnoINT0132952 @ rn6
Intron Retention
Gene
ENSRNOG00000016254 | Sema4c
Description
semaphorin 4C [Source:RGD Symbol;Acc:1562837]
Coordinates
chr9:43134474-43134738:-
Coord C1 exon
chr9:43134676-43134738
Coord A exon
chr9:43134573-43134675
Coord C2 exon
chr9:43134474-43134572
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ATACCTTTCTCTCCTTGAAGACC
3' ss Score
8.34
Exon sequences
Seq C1 exon
ATCTCCTGGGAGGCTCCAGCTGAGAAGAAAATTGAGTGTACCCAGAAAGGGAAGAGCAACCAG
Seq A exon
GTGAGTGCTTAGGGCACTTCCCCTACCAGGACTCCCTCCTTAGGGGACCTCCTATCTCTGGCTTTTAGTTCTTGCTAACCTGTATACCTTTCTCTCCTTGAAG
Seq C2 exon
ACCGAGTGCTTCAACTTCATCCGCTTCCTTCAGCCATACAACGCCTCCCATCTGTACGTTTGTGGTACCTATGCCTTCCAGCCCAAGTGCACCTACATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016254:ENSRNOT00000021956:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(4.7=100)
A:
NA
C2:
PF0140314=Sema=FE(7.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTCCTGGGAGGCTCCA
R:
GATGTAGGTGCACTTGGGCTG
Band lengths:
162-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]