RnoINT0132908 @ rn6
Intron Retention
Gene
ENSRNOG00000018952 | Sema3g
Description
semaphorin 3G [Source:RGD Symbol;Acc:1306079]
Coordinates
chr16:7307661-7308117:+
Coord C1 exon
chr16:7307661-7307806
Coord A exon
chr16:7307807-7308002
Coord C2 exon
chr16:7308003-7308117
Length
196 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGA
5' ss Score
5.46
3' ss Seq
ACTCCACCCTCCATCCCCAGAAT
3' ss Score
9.43
Exon sequences
Seq C1 exon
ATCCCCGGTTTGTGATGGCTGCTCGGATCCCAGATAACTCCGACCGGGATGATGACAAAGTGTACTTCTTCTTCTCTGAGACTGTCCCTTCACCAGATGGTGGCCCAGGTCATGTCACCGTCAGCCGCGTGGGTCGAGTCTGTGTG
Seq A exon
GTGAGAGCTGTGGTGGGGTGGTGAGAGTTCAAGACCCCTGTTGTGACCTCTTCCCTAGACTGTCCCTTCACAGTAGAGAAACTGAGGCAAGGATACAGCGCTAACATACATCCCTCTCTTTGTGGTTGAGGGTAGAGGGACAGGAGGCAGGGCCAATGTCACGAGTCATAAAGCTGACTCCACCCTCCATCCCCAG
Seq C2 exon
AATGATGCTGGTGGCCAGCGGGTGCTGGTGAATAAATGGAGCACGTTCCTCAAGGCCAGGCTGGTATGCTCTGTGCCTGGCCCTGGCGGGGCTGAGACTCACTTTGACCAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018952:ENSRNOT00000025656:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(10.8=100)
A:
NA
C2:
PF0140314=Sema=FE(8.5=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:
TTTGTGATGGCTGCTCGGATC
R:
GTCAAAGTGAGTCTCAGCCCC
Band lengths:
246-442
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]