RnoINT0133070 @ rn6
Intron Retention
Gene
ENSRNOG00000045998 | Sema6b
Description
semaphorin 6B [Source:RGD Symbol;Acc:69278]
Coordinates
chr9:10945162-10946283:+
Coord C1 exon
chr9:10945162-10945250
Coord A exon
chr9:10945251-10946065
Coord C2 exon
chr9:10946066-10946283
Length
815 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTCA
5' ss Score
-2.05
3' ss Seq
GGTGCCTACTTCTTGCCCAGGTG
3' ss Score
6.69
Exon sequences
Seq C1 exon
AGCCATACTTTGTGCATGCGGTGGAGTGGGGAAGCCACGTCTACTTCTTCTTCCGGGAGATCGCCATGGAGTTTAACTATCTGGAAAAG
Seq A exon
GTTTCATTGCAACTTCTGTGATGCTTGGGCCCAGGACATTAGCTGAGAGGCTCAGGCAGGGAAAGTAGACAGAAGGTCTAATCCATTAAATCCACCTGGATCAGAGGAACCAGTCTTCACATAGTGTCCCCTCCAATGAGGACCAGGTCTATGAGGCTGAAAGACATTTAAGGAGGAACTGAGGAGCTTGAAGGCTTTGTATAGAACAGTGTTGGAGACATTGATGTCATGTGGTCCCACAGTTCCTGTCTATCATCCTTCCCTCAATCTGTCTCACTGACACATGACCAAAAGCCCAACTATTTATTCTTCAGCCCTTCCCAGAATCATTAACCTGAGTCTAGTCACAATCCACCCACCTATCCATCCATCTACCCACCCAACCATCTATCTATAAATAAATACATCCATCTATCCATAAACCCATCCATCCATTCACCCACCCACCCATCTATCTATAAATACACCCATCTATCCATAAATCCATAAACCCATCCACCCATCCATCCATCCATCCATCCATCCAGAAACTCATCCATCCATCCATTCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCATCCAGAAACTCATCCACTCACCCATCCAGCCTCCCACACATTTATGTTTTGCACTGTCGCCTGTGCCACCCCTGTCCTTGCTGCCTGGCATCCAGAGTGCTGTGGGTAGCAGGTCCCCCCTTAGTCCTTTGTAAGAGAAGTTCCCTGTCTGGCATGACAGGCAGTAGCCATTTCTACATCATGCTAACTCAGGGTGTTCCCGGTGCCTACTTCTTGCCCAG
Seq C2 exon
GTGGTGGTGTCCCGTGTGGCCCGTGTATGCAAGAATGATGTGGGCGGCTCCCCACGGGTGCTGGAGAAGCAGTGGACTTCCTTCCTGAAGGCCCGGCTCAACTGCTCCGTGCCTGGGGACTCACACTTCTACTTCAATGTACTGCAGGCTGTGACTGGTGTGGTGAGCCTTGGCGGCCGTCCAGTGATTCTTGCTGTCTTCTCAACTCCTAGCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000045998:ENSRNOT00000070794:8
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(6.9=100)
A:
NA
C2:
PF0140314=Sema=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCATACTTTGTGCATGCGG
R:
GCTAGGAGTTGAGAAGACAGCA
Band lengths:
302-1117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]