GgaINT0029102 @ galGal4
Intron Retention
Gene
ENSGALG00000004844 | SEMA6D
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D [Source:HGNC Symbol;Acc:HGNC:16770]
Coordinates
chr10:9411203-9411669:+
Coord C1 exon
chr10:9411203-9411264
Coord A exon
chr10:9411265-9411612
Coord C2 exon
chr10:9411613-9411669
Length
348 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
TGTTCCTTTAATTCTTTTAGAAA
3' ss Score
8.3
Exon sequences
Seq C1 exon
CACTGGAGGATATGTACAAGATGTAGAATATGGCAACACAGCGCAGCTTGGGGACTGCCACG
Seq A exon
GTAAGACAGAGCCATTGCTTTTCATTTGTAATGTCCCAGCAATAGTCTGTGGCCACACTTCACTGTAGATGTTAAATTTATTATGAGCTTTTCAGTAACATAAACGCATCACCTGGTGTAACTGTGAATGTTCACAAAGCTGAGCTTTTTTGGTCCTGTGTGGCAGAGTTTTGTCTTTCTTCTCCTTCACCAATTTGCAACTATTTGGGGTCTACAGGAAAGTATTGAAGAATTTATTTTTTAAAAGCAGTAATATTTTAGTTTTTATTTCCCGTCACGCAGGTCTGAGATCTTTTGCTTTCTTTTTTGTTACTTTTTACTGATTACTTGTTCCTTTAATTCTTTTAG
Seq C2 exon
AAATTTTGCCTACTACAGCTACACCAGATTACAAAATATTTGGCGACCCAACATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844:ENSGALT00000007734:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(35.0=100)
A:
NA
C2:
PF0143720=PSI=PD(5.0=15.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]