GgaINT0144564 @ galGal3
Intron Retention
Gene
ENSGALG00000001171 | SEMA6B
Description
NA
Coordinates
chr28:2063635-2064018:-
Coord C1 exon
chr28:2063916-2064018
Coord A exon
chr28:2063765-2063915
Coord C2 exon
chr28:2063635-2063764
Length
151 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
CCCCCTCCTGTTGTCCCCAGATG
3' ss Score
12.92
Exon sequences
Seq C1 exon
ATGTGGCCCCCCCTCGTCCTGCTGCTCCTGCTCGCAGCGGAGAGGACGGCTCACGGCACCTTCCCCGAGGAGCCCAACCCCATCGCCGTGGCAAACGAGGACT
Seq A exon
GTGAGTGCCTGGGGAGGGGGCCAGGGGGGCACAGATGGGTGCAGAGAGGGGACGGGGCTGGGGGGCTCGGGGTGCTCTGTGAGTAGGGTGCTGGCTGGCCGTGGGGCTGTGTGTGATGCTATCTCCATGCCCCCCCTCCTGTTGTCCCCAG
Seq C2 exon
ATGTGAAGCACTACGCCGTGTTCGTGGGCCATGGCAGCAGCCGGCCGGGCGGCCCCGAGGGCGGTGGCACCGAGCGCCTCAACATCCAGCGCATCCTCAAGGTCAACCGGACCCTCTTTGTTGGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001171:ENSGALT00000001774:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.205
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0140314=Sema=PU(3.8=36.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCGTCCTGCTGCTCCT
R:
GTCTCCAACAAAGAGGGTCCG
Band lengths:
220-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]