GgaINT1024755 @ galGal4
Intron Retention
Gene
ENSGALG00000001171 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr28:2497932-2498763:-
Coord C1 exon
chr28:2498569-2498763
Coord A exon
chr28:2498073-2498568
Coord C2 exon
chr28:2497932-2498072
Length
496 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
GAGCTCTGCCCCATCCCCAGATG
3' ss Score
6.73
Exon sequences
Seq C1 exon
GTACCAGCTCCGCAAGATTGTGGTAGACAACGCGGCAGGACCATGGGGCAACCACACCGTGGTCTTCCTGGGCTCCAGCACAGGCACCATCCTCAAGTTCCTCATCCATCCCAATGCCACCAGCAGCCCCGCACCTGCACCCCCCGGCAGCCAGAGTGTCTTCCTGGAGGAGTTTGAGACCTACCAGCCTGGGAG
Seq A exon
GTGGGCTGGGGTGGGGAGGGGGAGGTGGGTGGGTGGTGGTTGGGTGGGTGAGTAGGGGGTGGGTGGGTGGGTGGGTAGGTAGATGTGTGGGTGGGTAGTTGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGACGGACGGACGGGTGGGTGAGTGGGTGGATGGGTGGGTGGGTGGATGGGTGGATGGATGGATTGATGGATGGGTAGGTGGGAAGATGGATGTGTGGTTGGATGGATGGATGGGTAGTTGGATGGGTGGGTGGGTGAATGGATGTGTGGTTGGATGGATGGATAGGTAGATGGATGGATGGACGGAAGGAACAGATCAGAAAGATGCAAGGACTAGACGGGTGGTGGGATCAGTGGGGTGGATGTGTGGGTCAGACAGGGGCAACGGGTGAGCTCCATTCTCTGGACCAACCTGCACCAGGGCAGGTGGGGACGGGAGCTGGGGCCGCACTGAGCTCTGCCCCATCCCCAG
Seq C2 exon
ATGTGGCCGGGACACAGAGGACGAGCGGAGACTCCTGGGCCTGGAGCTGGACAAGGCAGCCGGGTCCCTGCTGCTGGCCTTCCCCCCCTGTGTGGCCAGGGTGCCCGTGGCTCGCTGCCAGCAGCACTCAGGCTGCATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001171:ENSGALT00000001774:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.083
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(15.3=100)
A:
NA
C2:
PF0140314=Sema=PD(0.1=0.0),PF0143720=PSI=PU(15.8=18.8)
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:
GTACCAGCTCCGCAAGATTGT
R:
TTCATGCAGCCTGAGTGCTG
Band lengths:
336-832
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]