GgaINT1024754 @ galGal4
Intron Retention
Gene
ENSGALG00000001171 | SEMA6B
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr28:2498569-2499651:-
Coord C1 exon
chr28:2499502-2499651
Coord A exon
chr28:2498764-2499501
Coord C2 exon
chr28:2498569-2498763
Length
738 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
GCTCTGCTCACGCTATGCAGGTA
3' ss Score
6.53
Exon sequences
Seq C1 exon
ACCCGGGTGCTGTGCGGCCCCGGGGATGCGCTACAACTCCTCCAGCACCTTCCCCGATGAGATCCTCACCTTTGTGAAGACTCACCCACTGATGGATGAAGCGGTGCCATCCCTGGGCAACGCGCCCTGGATTGTCCGCACAATGAGCCG
Seq A exon
GTGAGTGTGGGGGAAGGATGGGACCTGGAGAGGCTGCAGAGGGGCCCCCAGCAAAAAGCAGTGCAGGAGAGTGGCTGCTTTTGGGGTGCACGTGTGTTTGTGCATGCACAACCGCTCACAGCTGTGCCCATCCATGTGCATGGCTTGCGCTGCTGTGCCTCAGCACGTTGCTGCCTCCAGCACTGCCCCTGCATGGGAGAGCGCCGTGAGACCTGATAAATGTCATAAACTTTGCAGCTGAGATTGTCTCATCCTAATTAAATCTGCCTTAATTGCTGTTTGATGGGGAATTAATCAAGCTGCGTGCTCGGGCCACGGCCTCCAGCCAGCAGGACATCATGCAGGGCTGCAGACGGGGCTGTGGGGACAGGGAGGTGGGGAGGGGGACAGGCGTATGGAGCACGGGCTGGGGATCAGCTGGGGTTCCACAGGGGGTCAGGGGGACCAGGGCTGGATCCCAAATAGGGTCAGGGCTGGGGACTACTAGCTGCGACCAGAAGGGAATCCAGGCAGGATCTTAAGTGGGCTCTGGAATGGGTTTGGCTGCATCATGGTTGGGATCCAGGCCAAGTCTGCCTGGGATCTGGACTGGTTTCCATGTGGAATCTTCTGCTTTCCCCCGCATTCTGTGGTGGTCTATGCCCTGGGGTCCAGCTCCCGCCCTGCCTCTGTTTCTCCTCCTGAGGACAACATGGGTTCCTGCTGGCCCCAACACCCTGCTCTGCTCACGCTATGCAG
Seq C2 exon
GTACCAGCTCCGCAAGATTGTGGTAGACAACGCGGCAGGACCATGGGGCAACCACACCGTGGTCTTCCTGGGCTCCAGCACAGGCACCATCCTCAAGTTCCTCATCCATCCCAATGCCACCAGCAGCCCCGCACCTGCACCCCCCGGCAGCCAGAGTGTCTTCCTGGAGGAGTTTGAGACCTACCAGCCTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001171:ENSGALT00000001774:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(11.8=100)
A:
NA
C2:
PF0140314=Sema=FE(15.3=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:
CCGGGGATGCGCTACAAC
R:
CTCCCAGGCTGGTAGGTCTC
Band lengths:
326-1064
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]