GgaINT0061032 @ galGal3
Intron Retention
Gene
ENSGALG00000002294 | SEMA6A
Description
NA
Coordinates
chrZ:70745563-70745879:+
Coord C1 exon
chrZ:70745563-70745703
Coord A exon
chrZ:70745704-70745798
Coord C2 exon
chrZ:70745799-70745879
Length
95 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTCTGCTCTTTTTTCTCAAGGGC
3' ss Score
8.77
Exon sequences
Seq C1 exon
GTGCAGTTACGATGGCATGGAAGACAAGCGTATTGTGGCTATGCAGCTTGACAAACCCAGCAGTGCCCTTTATGTTGCCTTCTCCACCTGTGTCATCAAGGTTCCCTTGGGGCGGTGTGAGCGTCATGGTAAATGCAAAAA
Seq A exon
GTAAGTACTTTGGCCAGCACTTGCTCTCTTGTCAGAAGCCTGTGTGCCGGGCATGAGAGCATTCCAAAATGCTTCTTCTGCTCTTTTTTCTCAAG
Seq C2 exon
GGCCTGCATAGCATCCAGAGACCCCTACTGCGGCTGGGTGAAGGAGAGCGGGGCGTGCACGCAGCTGGTCCTTGGTGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002294:ENSGALT00000003608:13
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=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=PD(2.3=20.8),PF0143720=PSI=PU(14.3=18.8)
A:
NA
C2:
PF0143720=PSI=PD(69.7=82.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCAGTTACGATGGCATGGA
R:
CAGTAGGGGTCTCTGGATGCT
Band lengths:
171-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]