GgaINT0058677 @ galGal3
Intron Retention
Gene
ENSGALG00000010581 | SEL1L
Description
NA
Coordinates
chr5:43393518-43394057:-
Coord C1 exon
chr5:43393976-43394057
Coord A exon
chr5:43393673-43393975
Coord C2 exon
chr5:43393518-43393672
Length
303 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAA
5' ss Score
4.79
3' ss Seq
TGTACAAACCTATTTTCTAGTTG
3' ss Score
5.76
Exon sequences
Seq C1 exon
GGTTACCGTTACTGGGCTGGGATAGGAGTGCTACAAAGCTGTGAATCTGCTCTCACTCACTATCGACTTGTAGCTAATCATG
Seq A exon
GTAAAAGTGCTTGTTACTAGACTAATATTTTTGAATGTTATAGAAATACGTAGAAAGTCTTCCCTTGTCAGCATTAGAATTGTAAAAATATAATTCTTAGTTCTCAGTGATCAATTTGGTTCTGAATCATAAGGTTTTTGCCTCTATTTTATAGAAATGAATTTAATTCTTAAACAGCATGTCAGTAATTTATTCGCTGTATAAAAAAAAAAAAAACCTGGATCTCTAATGGTTACTCAAAGTTGCACTATAGTATTTGTATTGAGAAAAGCTGCCTGAAAGTTGTACAAACCTATTTTCTAG
Seq C2 exon
TTGCTAGTGATATTTCACTGACTGGTGGAACAGTGGTTCAGCGGATTCGCTTAGCGGATGAAGTAGAAAATCCAGGAATGGCAAGTGGAATGCTGGAAGAAGACTTGATTCAGTATTACCAGTTTGTAGCAGAGAAAGGAGATGTACAAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010581:ENSGALT00000017221:9
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:
NO
A:
NA
C2:
PF082387=Sel1=PU(8.1=5.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTACCGTTACTGGGCTGGGAT
R:
TGCTTGTACATCTCCTTTCTCTGC
Band lengths:
232-535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]