RnoINT0132811 @ rn6
Intron Retention
Gene
ENSRNOG00000016512 | Sema3b
Description
semaphorin 3B [Source:RGD Symbol;Acc:1310079]
Coordinates
chr8:116360996-116361343:-
Coord C1 exon
chr8:116361297-116361343
Coord A exon
chr8:116361181-116361296
Coord C2 exon
chr8:116360996-116361180
Length
116 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGC
5' ss Score
8.56
3' ss Seq
TGCCGACTCTTCTCTTCCAGATC
3' ss Score
11.25
Exon sequences
Seq C1 exon
GTCTCTGATTGTGGCCAGGCGGGGCACCCTTGGTGGAGAGGAAAACG
Seq A exon
GTATGCGACCCCCCAGCCTCTATCCCTAGGGGCTGTAATCTGATCCCTTGGGACTCCCCCATGCCCTCCCACCCGCCCTTACCCTCTCTGCTTTGCTGCCGACTCTTCTCTTCCAG
Seq C2 exon
ATCCCGGGGCAGAGTCCAGGGCTGCCGAAGGCTCCTCCACACGCCTGCTGAACCCTGAGCGCCCTGTGCTGCCGGCATGGGGCGGGCTGAGGCCGCCGCCATGATCCCAGGCCTGGCCCTTCTCTGGGTAGCAGGGCTGGGGGATGCTGCCCCTAACCTTCCCCGCCTTCGGCTCTCCTTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016512:ENSRNOT00000066296:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTCTGATTGTGGCCAGGC
R:
CGAAGGCGGGGAAGGTTAGG
Band lengths:
218-334
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]