RnoINT0133068 @ rn6
Intron Retention
Gene
ENSRNOG00000045998 | Sema6b
Description
semaphorin 6B [Source:RGD Symbol;Acc:69278]
Coordinates
chr9:10943899-10944686:+
Coord C1 exon
chr9:10943899-10943989
Coord A exon
chr9:10943990-10944566
Coord C2 exon
chr9:10944567-10944686
Length
577 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCTTGTTCCCTGATGTCCAGATG
3' ss Score
5.3
Exon sequences
Seq C1 exon
ATGGACACACTGCAGCTTCTTGGAGACAACATCAGTGGTATGGCCCGCTGCCCCTACGACCCCAAGCATGCCAATGTCGCCCTCTTCTCAG
Seq A exon
GTGAGTGATTTCTGCTGTTGGCATGTCCAGTTCCAAGAAAGGCGTTTTTCATTCCTAAAATCCTGGTTGCTCAGAGGCAGCTGGGAAATGAGCAGAATCTAAGGGGACATAGTCAGGTCAGGGTCATGTTCAGGAAGACGTGAGGCTGAGCCAGAGGAAGAAATTTAGCCTGGGACCAAGGTTCAACTGGATTTAGTCTCATCCTGTGTGAGGACTCAGCCTGGGATTCAGGCTCATTCAGTAACAGGATCCTGATGGGAACCAGGCTCAACCTATTGACAGTCCATACTGGGCTGAGATTCTAATTTTCACTCCTGCCTCCTCTGGTCTTTCTATTATGATTATTATTATTGTTGTTGTTGTCATTATGATTTTCTGAGACAGGGTTTCCCTGTGTAGCCCTGACTGTCCAGGAACTCACTCTGTAGACCAGGCTGGCCTCAAGCTCACAGAGATCCACCACCTCTGCCTCCTTAGTGCTGGGATTCAGGCCTGTGCTACTGTGCCTGGCTTCTCTCTGGGCCTTCCCAGTTTAATCTCAATCTGCTTCCCTCACACCTTGTTCCCTGATGTCCAG
Seq C2 exon
ATGGGATGCTCTTCACAGCCACAGTAACTGACTTCCTAGCCATCGACGCTGTTATCTACCGTAGCCTTGGGGACCGGCCCACACTGCGCACAGTAAAGCATGACTCCAAGTGGTTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000045998:ENSRNOT00000070794:6
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(7.1=100)
A:
NA
C2:
PF0140314=Sema=FE(9.5=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:
TGGACACACTGCAGCTTCTTG
R:
AAACCACTTGGAGTCATGCTT
Band lengths:
206-783
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]