GgaINT0038638 @ galGal3
Intron Retention
Gene
ENSGALG00000003399 | SELE
Description
NA
Coordinates
chr8:5312675-5313877:+
Coord C1 exon
chr8:5312675-5313061
Coord A exon
chr8:5313062-5313769
Coord C2 exon
chr8:5313770-5313877
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
GGCTTACAATACTAGAGATGGTGAATTGTTGGACATACCATTATTCAGACACAAACATGACCTACAAAGAGGCAGAGTTGTGGTGCAAAAAGAGGTATACTAACATGGTTGCCATTCAAAACAAGGATGAAATCAACCATCTCAATGACTTTTTACCCTTCAATCCGAGTTACTACTGGATTGGAATCAGAAAAATTAATGGTACATGGACCTGGGTTGGAACAAACAAGGAGCTGACAAAAGAAGCAGAAAACTGGGCTTCAGGTGAACCAAATGGCAAAGGGAACAATGAGGACTGTGTTGAAATCTACATCAAAAGAGGGAAGGATGACGGCAAATGGAATGATGAGAAGTGTGAGAAGAAGAAGGTTGCCTTGTGCTATACAG
Seq A exon
GTACAGTATCATAAAGTCCATTTCAGTGAGCCCCTGTGGAGATGAGATAGTGGGATGGGTTGTTTAAGCTAGTTTTACATGCTGACTACCTGACTGTAAAGATCCTACACTTATCCTTACTCACAGGGTTGAGAATGCTCTTGTTCTAAGAGCTGGATTGATCTCACTAACCTTTTAGCCTCCAGAGTATTATACATCTTTTCTAAGCAAGCCATCAGGTCTCTATAATCAGTGGAGAGAAAATGGCTCTTTCAGAAGTTGGATTTCATCCCACTCTGAAGTCTGAGCTACATAAGAATCGCTGTTTTAGAGGTGTCTGTCTCTTTGCTGACTATAGTGCACTGGGTTAAATCTAACACTCTGTGTATATATATTATACACTCTATGTAGAGATTACTAAGGCTAGTAAGTAAAATAACCACCATCTACCTGAGAACAAGTGGCCATAGAGTTTCCCTTGGAATCCTTTCATTGTGAACTAATCTGTCAAAGGCATTGATTTCTGAAATGCTTCTGTAAAATGGCAGAATTGACTAATATGCCAAAAGTTCCTGCATTCCTTTTGCTTCACAAACTGCTTCTTTAGTGACAGAAAGATAAATGAAGCACAGGCCAGATTTAATTAGTGGCCATTGCTGATTATTTTATCTAATGGACTTCTTTCTTTCCTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGCAG
Seq C2 exon
CTTCTTGCAACTCATCTCTCTGCAGTGGCCGTGGAAAATGCATAAAGACTATTAACAATTACACCTGCCATTGTAACCCTGGATTCTATGGGCCGGGTTGTGAATTTG
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),PF079748=EGF_2=PU(0.1=0.0)
A:
NA
C2:
PF079748=EGF_2=WD(100=91.9)
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]