GgaINT0038639 @ galGal3
Intron Retention
Gene
ENSGALG00000003399 | SELE
Description
NA
Coordinates
chr8:5313770-5314189:+
Coord C1 exon
chr8:5313770-5313877
Coord A exon
chr8:5313878-5314003
Coord C2 exon
chr8:5314004-5314189
Length
126 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAAA
5' ss Score
3.23
3' ss Seq
TTTCTTGTGTTTCTTTGAAGTTG
3' ss Score
8.14
Exon sequences
Seq C1 exon
CTTCTTGCAACTCATCTCTCTGCAGTGGCCGTGGAAAATGCATAAAGACTATTAACAATTACACCTGCCATTGTAACCCTGGATTCTATGGGCCGGGTTGTGAATTTG
Seq A exon
GTAAAATTACTACATCCTTTCTTCCAAGCAGGGAGATGGTCATGCTAGCTTAATTCTGTTTGTCTGGCTTGATTTGCCTGCTTAACCAAAGGGGCTGACTGTGTACTTTCTTGTGTTTCTTTGAAG
Seq C2 exon
TTGAGACTTGTGATCAACTGAAGAAACCTGATCACGGAAGCCTTGAGTGCAACCATCCGTTGAAGGACTTCAGCTACAACTCGTCATGCACAGCTCAATGTGAAGAAGGCTATGAGCTGAATGGATTGGAGTCAGTATATTGTACGTCTCATGGAAACTGGTCTGGCCCACTTGCATCATGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003399:ENSGALT00000005376:3
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:
PF079748=EGF_2=WD(100=91.9)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.1)
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:
AGTGGCCGTGGAAAATGCATA
R:
GGCCAGACCAGTTTCCATGAG
Band lengths:
253-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]