RnoINT0132905 @ rn6
Intron Retention
Gene
ENSRNOG00000018952 | Sema3g
Description
semaphorin 3G [Source:RGD Symbol;Acc:1306079]
Coordinates
chr16:7306783-7307265:+
Coord C1 exon
chr16:7306783-7306902
Coord A exon
chr16:7306903-7307174
Coord C2 exon
chr16:7307175-7307265
Length
272 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
ACCCTCTCCCCTCTATCTAGCAT
3' ss Score
8.65
Exon sequences
Seq C1 exon
ACCGAGTGTGCCAACTTCGTGCGGGTCTTACAACCCCACAACCGGACCCATCTGCTGGCCTGCGGCACTGGCGCCTTCCAGCCCATCTGCACCTTCATCACAGTGGGGCATCGGGGGGAG
Seq A exon
GTGAGCCTGGGTCTGGCCCCATGAGAAGTTGGGAAGCTGTGACATTTCCTCCCCGCTGTCTGAACACTTCCCATTGAGCCAGGGTAGGGCAGAGGGGGAAGGGGCTTGAAAGGCGCCTTTGTGCTGGGGTGCTGACCCCATCAGAGAGGCTGTGGATGAGGATCTCTTCCCCCAACCCCCAACCCTACGCTCCAGTCGCACGCAAAGATTACTGCCCGAGGCTCTGCTTCTTTCAGAGGTGACCCCGTACGTACCCTCTCCCCTCTATCTAG
Seq C2 exon
CATGTGCTCCACTTGGATCCTAGCAGCATCGAAAATGGAAGGGGGCGTTGCCCACACGAGCCCAGCCGTCCCTTCGCCAGTACCTTTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018952:ENSRNOT00000025656:4
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=0.516
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(8.7=100)
A:
NA
C2:
PF0140314=Sema=FE(6.7=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:
CCGAGTGTGCCAACTTCGTG
R:
CAAAGGTACTGGCGAAGGGAC
Band lengths:
207-479
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]