DreINT0132839 @ danRer10
Intron Retention
Gene
ENSDARG00000061976 | sema6bb
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6Bb [Source:ZFIN;Acc:ZDB-GENE-081105-129]
Coordinates
chr8:18951931-18952320:-
Coord C1 exon
chr8:18952189-18952320
Coord A exon
chr8:18952081-18952188
Coord C2 exon
chr8:18951931-18952080
Length
108 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAA
5' ss Score
5.96
3' ss Seq
TTTGTTTGTGGATTTTTCAGGCC
3' ss Score
7.97
Exon sequences
Seq C1 exon
TATTCCTGGATCTGCGGTGTGTGCTTTCGACATGGAGCAGCTGGCTGGAGTGTTTGATGGAAGATTTAAAGAGCAGAAATCGCCTGAATCGATATGGACACCTGTTCCAGATGAGGCTCTGCCCAAACCGAG
Seq A exon
GTATAAAATGAAATGACATTTACAACTCCAGAGAGTGTTTTATGTCCTTAAATGCCAACCTGCTGAGAGAAAGTTTATAATAATGCTCTTTGTTTGTGGATTTTTCAG
Seq C2 exon
GCCGGGTGGTTGTGCCGTACAAGGCTCCAAATTCAACTCCTCCAACTCTTTCCCTGATGACATGCTAACGTTTGTCAAAACTCATCCACTGATGGATGAAGCCGTCCCATCTCTTGGCCAGAGACCATGGATTGTTAGGACCATGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061976:ENSDART00000089024:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.244 A=NA C2=0.196
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(10.5=100)
A:
NA
C2:
PF0140314=Sema=FE(11.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTGTGCTTTCGACATGGA
R:
ATCCATGGTCTCTGGCCAAGA
Band lengths:
249-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]