GgaINT1024116 @ galGal4
Intron Retention
Gene
ENSGALG00000015082 | RPS6
Description
40S ribosomal protein S6 [Source:RefSeq peptide;Acc:NP_990556]
Coordinates
chrZ:33598892-33600075:-
Coord C1 exon
chrZ:33599790-33600075
Coord A exon
chrZ:33599024-33599789
Coord C2 exon
chrZ:33598892-33599023
Length
766 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGG
5' ss Score
2.76
3' ss Seq
TTATTTTTTTCTACTGTTAGCTC
3' ss Score
6.55
Exon sequences
Seq C1 exon
GGACAAAACCGCGGCCTTGCAGTACACCGCTCAACGACCGCCTCCGTCACCTGCGCTCACGACAGCAGAAAGCACGTCAACCACCGCCTAGCACTGGCAAGCCGGAAGCTGCCTCCCGCCACGCCCCATGGCGAGAGAGACCTCGCTCGCAATTGGACAGCCGCGGTCACGTGTGGGCGGGCGCGGAGCCGATGGACCGCTCTCGCGAGGTTTGGCGGGTGTATGTGCTGGTTGCGGGCGGAAGTGCGGCCTTTTTGTGCGGCGGCGCAGTTCGGCGAGGATGAAG
Seq A exon
GCAAGGCTCTGTTGGCGGCCGGGGTGGTGCTGGAGGAGGGCTGGGTTCCCGCACCACAAACGGGCCCGGCGCTGCCTCTGGGGCTGCTGATGGGGCACGATGGGCTGCGGCGGCGGGCTCGGGGCGCCTCTGTTGGCTGGATGGCGGTGGATTGCGGGTGGTTCGAGATGGCGGCCGCGCGGCTCCGTGCCCCTTGTTGAGGCCTCTTCCTGAGCTGGGGGCTCTGGGTTATGGGTCGAGTCGCTCTGTTATGGGACTCCTTACGGCGAGAAAGAGTAGAAGGTTCTTACCGGCGGTAGTGGAGCCCTGGCAAGGAGGTAGTGGAGCTGGGCCTGTTCCTGTGGCCTTGTCACTGGGGAAGTGCTAGGCAGCTTTTCCCAAGGTTGCTGGTCTGGCAGTAGCCCTCGGGAAACAGAGGTGGTGATCAAGGCATAGCGTAGCTATTTTGGGCTGCTTGTGTTGTTTCTTCGACATTATACATGGGAGGAAGGGAGTACAGCTTTCGGTTATCTCTACCGCCATTTGCTTGGTGGCAGTCAGTTTAGAGGGCATAGTGTACGGGGCAGAAGGTTTTGTATCATTAGCAGACATAGATCTGCCTTGTTCTGTAAGTGCAGTAGTAACAGGTTACTGCTAGTAAGCAAATAGAAGCTTTTGGATTTGAAATGTTAAGGTGAAGCCAGCAGTTCAACGCTAATTTTCTCAGGAAATGTCATGTCAGAAGCTTCAACTAAATCATGTATTGTTTATTTTTTTCTACTGTTAG
Seq C2 exon
CTCAACATCTCTTTCCCAGCCACTGGCTGCCAGAAGCTTATTGAAGTGGATGATGAGCGCAAGCTGAGAACATTCTATGAGAAGCGAATGGCCACGGAGGTTGCGGCTGATTCTCTTGGCGAGGAGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015082:ENSGALT00000024329:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.302 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0109214=Ribosomal_S6e=PU(0.8=1.9)
A:
NA
C2:
PF0109214=Ribosomal_S6e=FE(33.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTGCAGTACACCGCTCAAC
R:
AATGTTCTCAGCTTGCGCTCA
Band lengths:
346-1112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]