GgaINT0038639 @ galGal4
Intron Retention
Gene
ENSGALG00000003399 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:HGNC:10718]
Coordinates
chr8:5098848-5099236:+
Coord C1 exon
chr8:5098848-5098955
Coord A exon
chr8:5098956-5099081
Coord C2 exon
chr8:5099082-5099236
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
CTTCTTGCAACTCATCTCTCTGCAGTGGCCGTGGAAAATGCATAGAGACTATTAACAATTACACCTGCCATTGTAACCCTGGATTCTATGGGCCGGGTTGTGAATTTG
Seq A exon
GTAAAATTACTACATCCTTTCTTCCAAGCAGGGAGATGGTCATGCTAGCTTAGTTCTGTTTGTCTGGCTTGATTTGCCTGCTTAACCAAAGGGGCTGACTGTGTACTTTCTTGTGTTTCTTTGAAG
Seq C2 exon
TTGAGACTTGTGATCCACTTAAAAAACCTGATCACGGAAGCCTTGAGTGCAACCATCCGTTGAAGGACTTCAGCTACAACTCGTCATGCACAGCTCAATGTGAAGAAGGCTATGAGCTGAATGGATTGGAGTCAGTATATTGTACGTCTCATGGA
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:
PF0000822=EGF=WD(100=83.8)
A:
NA
C2:
PF0008415=Sushi=PU(84.2=92.3)
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:
TCTTGCAACTCATCTCTCTGCA
R:
ACTGACTCCAATCCATTCAGCT
Band lengths:
242-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]