RnoINT0133096 @ rn6
Intron Retention
Gene
ENSRNOG00000004812 | Sema6d
Description
semaphorin 6D [Source:RGD Symbol;Acc:1310910]
Coordinates
chr3:116944138-116944855:+
Coord C1 exon
chr3:116944138-116944249
Coord A exon
chr3:116944250-116944794
Coord C2 exon
chr3:116944795-116944855
Length
545 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
AACTGCCTTGTCTCCAACAGGGA
3' ss Score
9.46
Exon sequences
Seq C1 exon
ATTCAAGGCAATATCCGGTTTTTAGAGGACGCCCTTCAGGCAACGAATCGCAGCATAGGCTGGACTTTCAGCTGATGTTGAAAATTCGAGACACACTTTATATTGCTGGCAG
Seq A exon
GTAATTTTCCTTTCGTTGGTTTATTAGATTAAAATTCTTTTCTCTTGTGGTGCTTGCATTAATGTGTCTAGTTCATGAAAAACTAATATGAGATTGTGATCAAACCCTGCAAGTAGCCAAAAATGCTCTCATGGAGAGCATGCTGGGTACCAGGATGGAAGGCAGAGTTAAAGCCTTCAGTGACACATCCAGAAATCATGCATCATTGTTATTTTGTCCCAGAGCAGCAGGGGGTGAGGGGGTGGGGTCATTCTTGATTCTCTCCTAACTTAGAATTTTCAGGCAAATATCAGAAATATGCCTGTGTTTATGCCCAGTCAGTTTGCCCCCAAGCCTGGAGAGAAAAGCTGCACTTGCCCTGGCTGCAGCAATGCACCAGAAGCATCTCCCTAGTGAGGAAGTGCCCTGTTGACTTTGTTCAAGTCACAGAGATGCCAGATGATCTTCAAAACATAGTCACAGCAGATCTGTAGGGATGAAATAAGAAACAGCGTATAGCACTGATGTGTTCACAGGATATGACTGAACTGCCTTGTCTCCAACAG
Seq C2 exon
GGATCAAGTCTATACAGTGAACTTAAATGACATCCCCCAAACAGAGGTGATCCCGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004812:ENSRNOT00000066101:3
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=PU(4.0=42.1)
A:
NA
C2:
PF0140314=Sema=FE(5.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]