RnoINT0132814 @ rn6
Intron Retention
Gene
ENSRNOG00000016512 | Sema3b
Description
semaphorin 3B [Source:RGD Symbol;Acc:1310079]
Coordinates
chr8:116355942-116356607:-
Coord C1 exon
chr8:116356388-116356607
Coord A exon
chr8:116356034-116356387
Coord C2 exon
chr8:116355942-116356033
Length
354 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
CTTTCCTTTCTTTTCTTCAGATG
3' ss Score
12.53
Exon sequences
Seq C1 exon
TGCCCCAGCAAGACCTTTGGCACCTTCAGCTCCACCAAGGACTTCCCAGATGATGTTATCCAGTTTGCTCGGAACCACCCCCTCATGTACAACTCAGTCCTGCCCATGGGGGGGCGCCCTCTCTTCCTACAAGTGGGAGCTGGGTACACCTTCACCCAGATCGCTGCAGACCGGGTAGCAGCAGCCGATGGACACTACGATGTGCTCTTCATCGGCACAG
Seq A exon
GTCAGGGTCCCACCACAGTGCCCACAGGACTGAGAGCCCCTCCAGGTTCCTTGGCCCAGAGTAGAAGTTGTTCTTGGTCAATCTAATATCTACATCTTTGTCTGAGCTGTGGCCCCGCTTTCTGAGGTCTCCCCTCATTGTTTCAACCCATAACTGTTACTTTTTCATGACCCAATCATGATGAAGGTAGAGGGCACAGGGCTAGAGCACATGTGCATGCACTCACACACACATGCATGCACACACACACACACACACACACACGCACACACACATGCACACACGCACACGCACATATACACACATGGCTCGTTAGGGAAACCCAATAGTCACTCTTTCCTTTCTTTTCTTCAG
Seq C2 exon
ATGTGGGCACGGTGCTGAAAGTCATCTCAGTCCCCAAGGGCAGCCGACCTAACTCGGAAGGACTTCTCCTGGAAGAGCTGCAGGTGTTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016512:ENSRNOT00000066296:12
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(16.5=100)
A:
NA
C2:
PF0140314=Sema=FE(6.8=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:
GCCCCAGCAAGACCTTTGG
R:
TCAAACACCTGCAGCTCTTCC
Band lengths:
310-664
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]