GgaINT1024758 @ galGal4
Intron Retention
Gene
ENSGALG00000001171 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr28:2496788-2497446:-
Coord C1 exon
chr28:2497388-2497446
Coord A exon
chr28:2497309-2497387
Coord C2 exon
chr28:2496788-2497308
Length
79 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
GCCCCCCTGCCCTCACCCAGGGC
3' ss Score
7.71
Exon sequences
Seq C1 exon
GACGGCTTTCGAGCAGGACATCTCCGGTGGCAGCACATCGCACCTGGGCGAGTGCGAGG
Seq A exon
GTGAGTGTGGGACGGGGATGGGACTCGGGGACACGCAGCACGTCACGGCTGTCCCCTGAGCCCCCCTGCCCTCACCCAG
Seq C2 exon
GGCTGGTGACGGAGAGCTTCGTGGACGAGCCGGACGGGCTGGTGTCGGTGAACCTGCTGGTCATCTCCTCGGTGGCCGCCTTCGTCATCGGCGCCGTTATCTCCGGCTTCAGCGTGTGTTGGTTCATCGGCCACAGGGACCGCAAGGAGCTGGCACGACGCAAGGACAAGGAGACCATCCTGGCACACAGCGAGTCGGTGGTGAGCGTCAGCCGGTTGGGCGAGCGGCGAGCGCGTGGCGGGCAGCCCGGCGCGCTGCTGGCCCCGCTGATGCCCAACGGGTGGCCCAAGGAGCTGGGCAAGGCGAGCCAACACGACCTGGACTCGGGCGTCCTGCCTACGCCGGAGCAAACCCCGCTGCAGCAGAAGCGCTGCCCCGGTGCCCTGCAGAACTGCACCTGGGAGCAGAGCCACAACATCATCAACGCCGCGCTGCGGGACCCTGGTGCCAGCGGCACGCGGCTGCACGCCGGCGCCGGCCGCTCTGCCCGCGGCATGCCCCTCTCCTGCCACGCCATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001171:ENSGALT00000001774:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(35.1=100)
A:
NA
C2:
PF0143720=PSI=PD(1.8=0.6)
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:
GCTTTCGAGCAGGACATCTCC
R:
CACGCTGAAGCCGGAGATAAC
Band lengths:
171-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]