GgaINT0038638 @ galGal4
Intron Retention
Gene
ENSGALG00000003399 | SELE
Description
selectin E [Source:HGNC Symbol;Acc:HGNC:10718]
Coordinates
chr8:5097753-5098955:+
Coord C1 exon
chr8:5097753-5098139
Coord A exon
chr8:5098140-5098847
Coord C2 exon
chr8:5098848-5098955
Length
708 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TTTTTTTTTTTTTTTTGCAGCTT
3' ss Score
11.72
Exon sequences
Seq C1 exon
GGCTTACAATACTAGAGATGGTGAATTGTTGGACATACCATTATTCAGACACAAATATGACCTACAAAGAGGCAGAGTTGTGGTGCAAAAAGAGGTATACTAACATGGTTGCCATTCAAAACAAGGATGAAATCAACCATCTCAATGACTTTTTACCCTTCAATCCGAGTTACTACTGGATTGGAATCAGAAAAATTAATGGTACATGGACCTGGGTTGGAACAAACAAGGAGCTGACAAAAGAAGCAGAAAACTGGGCTTCAGGTGAACCAAATGGCAAAGGGAACAATGAGGACTGTGTTGAAATCTACATCAAAAGAGGGAAGGATGACGGCAAATGGAATGATGAGAAGTGTGAGAAGAAGAAGGTTGCCTTGTGCTATACAG
Seq A exon
GTACAGTATCATAAAGTCCATTTCAGTGAGCCCCTGTGGAGATGAGATAGTGGGATGGGTTGTTTAAGCTAGTTTTACATGCTGACTACCTGACTGTAAAGATCCTACACTTATCCTTACTCACAGGGTTGAGAATGCTCTTGTTCTAAGAGCTGGATTGATCTCACTAACCTTTTAGCCTCCAGAGTATTATACATCTTTTCTAAGCAAGCCATCAGGTCTCTATAATCAGTGGAGAGAAAATGGCTCTTTCAGAAGTTGGATTTCATCCCACTCTGAAGTCTGAGCTACATAAGAATCGCTGTTTTAGAGGTGTCTGTCTCTTTGCTGACTATAGTGCACTGGGTTAAATCTAACACTCTGTGTATATATATTATACACTCTATGTAGAGATTACTAAGGCTAGTAAGTAAAATAACCACCATCTACCTGAGAACAAGTGGCCATAGAGTTTCCCTTGGAATCCTTTCATTGTGAACTAATCTGTCAAAGGCATTGATTTCTGAAATGCTTCTGTAAAATGGCAGAATTGACTAATATGCCAAAAGTTCCTGCATTCCTTTTGCTTCACAAACTGCTTCTTTAGTGACAGAAAGATAAATGAAGCACAGGCCAGATTTAATTAGTGGCCATTGCTGATTATTTTATCTAATGGACTTCTTTCTTTCCTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGCAG
Seq C2 exon
CTTCTTGCAACTCATCTCTCTGCAGTGGCCGTGGAAAATGCATAGAGACTATTAACAATTACACCTGCCATTGTAACCCTGGATTCTATGGGCCGGGTTGTGAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003399:ENSGALT00000005376:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.2)
A:
NA
C2:
PF0000822=EGF=WD(100=83.8)
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:
AGGCAGAGTTGTGGTGCAAAA
R:
GGCCACTGCAGAGAGATGAGT
Band lengths:
348-1056
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]