GgaINT1024766 @ galGal4
Intron Retention
Gene
ENSGALG00000001171 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr28:2500218-2500620:-
Coord C1 exon
chr28:2500532-2500620
Coord A exon
chr28:2500436-2500531
Coord C2 exon
chr28:2500218-2500435
Length
96 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGA
5' ss Score
5.64
3' ss Seq
GTGATGGGCATCCCTTGCAGGTA
3' ss Score
8.19
Exon sequences
Seq C1 exon
AGCCCTACTTTGTGCACGCGGTGGAGTGGAGGAGCCACGTCTACTTCTTCTTCCGGGAGATCGCCATGGAGTTCAACTACCTGGAGAAG
Seq A exon
GTTGGAGAGGTCCCTGCGGTGACTCGAGCCTTGGGGACACCCGAGGTGGGGGCTGTCCCTTTGTCCCTGCTGGGTGGTGATGGGCATCCCTTGCAG
Seq C2 exon
GTAGTGGTGTCCCGAGTGGCTCGGGTGTGCAAGAACGACATGGGGGGATCGCAGCGGGTGCTGGAGAAGCAGTGGACATCCTTCCTCAAGGCTCGGCTCAACTGCTCCGTGCCGGGTGATTCACACTTCTACTTCAATGTCATCCATGCTGTGACGGATATCCTGGAGCTCAACGGGCGCCCTGTGGTGCTCGCCGTCTTCTCCACGCCCACCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001171:ENSGALT00000001774:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(6.8=100)
A:
NA
C2:
PF0140314=Sema=FE(17.0=100)
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:
TGGAGGAGCCACGTCTACTTC
R:
CAGTTGAGCCGAGCCTTGAG
Band lengths:
167-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]