GgaINT0125839 @ galGal3
Intron Retention
Gene
ENSGALG00000001758 | QSOX2
Description
NA
Coordinates
chr17:8718383-8720629:+
Coord C1 exon
chr17:8718383-8718526
Coord A exon
chr17:8718527-8720499
Coord C2 exon
chr17:8720500-8720629
Length
1973 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGC
5' ss Score
5.66
3' ss Seq
GTTATATATGTGTGTTTCAGATC
3' ss Score
9.26
Exon sequences
Seq C1 exon
TCTGAAGCCCCTACGGTCGGTCTTTTCTTCATATTTGAAGTCTCTGCCAGGTGTAAGAAAGAAACTTCTTTCACCACTTGAGCTGCCTGTTAAAGAAAACAAAGAGGAGAGCACAGAGATCAAGCTGTGGAAGGAGTTTGATAA
Seq A exon
GTAAGCAATGCTGATTTCCAGATCTCGATTTTCAGATCAATGCTTGATTATTAAAATTGACTTGCAGTTTCTTTTTTGCCACATAGGAAACTGCAGTCATTACAAAATTCTAGTGCAGGCGAAAATGGTATTTCTTTCCATCCCAGCTGATGTAGCTTGATTTGAATAGGTTGATCACACTTTATGACCTTCGTTCTTCTGCAGAATAAAATTTAAGGCATTTTTGCTTAATATTGGAGAAATTATGGCACCAAAGCTGAAAGCAGTACTTCAGCTGTTGCTTCAGCTTGATCTGTTTCTCCGTATATTGAGATGACACTGAACTAGTTCATTTCCAGGACCAAGTTTACAGCTTCTGCTAAATGCAGGTAACATTTCTGTGTTTATGAGCAATGTTTCAATCAATTCCCTGAAAAAATGAACAGTAAAGCAACAAGCTATAGCACATTTCTGTAGAAAACAATTATTCTCTGTGTGTACTGGGAAGTAAGCAGTGCCCACTAAAAATGCTCAACAACAGCAAATGCAGTTGAAAATACTAAAGTCACTGTGAAAGATGTTTGTCAAACCAAATCTGATGAGGTTTATCTTTACTCTCTTTGCCCCATTCTCTGTTTGAGAGAAGGATACAAAGGCTTTACAGAGAGATAATCCCTCAGCATCTTTAGATGGAAAAGATACAGGACTGAGTGCTTTCATTTTGTACTTATTTTCCTTTTTTGGACACTATTAGTGTCATCTTCTTTCAATGACTATTGTAAAATATTTTACATAAAACATTGTATTATTAAAACAGCTTAGTTAAATGTAGCTGCTTCCCAGCAAGCCAAAATCTGTTGATATGAATCTCCAGTCCAAGTATCTTCCAAATGGGCTTTTTCTGGGAGAACCTTATGCACACATATGGATCTCTGTTTAAGAAACTTGAAGTCAGCAGAGTTTTTCTTTTTTCCCCTCAGTTTAAGTAAGTACATTATTAACTAAGGAGATATGTCAAAATAACTTTGTAGTTTGTGTTGTTAAGAATGTAGATTATCTTGCATTTTAATATATGTTATTTCATGCATGTAATTTTAGAGGTGGAGGCTGCTGATTTATTGAATGTGTGTTCGTTTTTGTTTGGTTTGGAAGTGATGAAGTTGTTGAGCTGTTACAAAAGAATACTGTGTGAACTTCTGTTTGTTCAGTTACATTGCTCTGCATGATACAATGTAAAGGTTGGAGTCTGAGAACACTGAAAGATCAGGCATTTTACCTGATGCATTTTATTGCAAATACCTCTTGTTGTTATAAAGACATTCGGCTGTGAGAATGAACTGTTAAAATATTTAATTTGCTTTAGGTGTTTTACCCGTGTAACTAAGAGCAGATGTAAATAAAATTAACTGGTTTGCAAGGAACTCTGTATGCAAGGAGCCTGCAGCAATACTGTAGCATTTGGGAGAGGATTTCTAGATTCAGTCCTTTCCAATAATGATTTTTGCCAGTCTTGCTTGCACTTCTGCTCTGTGTACCATCAGTGTATGTTAAGCAAGAGTCTCCCTTCTTTAGTAGCATGTAATTTTATTGTTTGTGTCAGATTCTGGAGAGAAGCTGTAATTTCTACTTCCTTGCTGACAGAGGTTTGTAATTTCATTGCAGGGTGAGGCTGGCTGAGAGACAAAAAGCTTGGTTTAATAGAAAGGAAAAATTCATAGGTGTGGTTTTGCTTCATGTGTCTGATCTCAGAACAGAGTGATACAGAACTACTTCAGGAGAGTGCAGTGGGTCTCAATGAACTTGACACTCACCATTCCCAGTAGCTGAAGCAACTGCTGTATCTTCCCGTGCGTGCTGTAGGATATACTGCAATCATTGTGGAGTGCCAAATGTAGAGGTTTTAATGACACCTACTATATATCAATTTTACCTTCATGACTGGTGAGAAAATGAGTGAAAGAACCCTGTCATAATGTTATATATGTGTGTTTCAG
Seq C2 exon
ATCGAAGCTGTACATGGCTGACCTTGAATCTGGATTGCATTACCTGTTCCGGGTAGAGCTTGCTACACACAAGATGCTTGAGGGAGCTGAGCTAAAGACCTTCAAGGATTTTGTTACCATCTCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001758:ENSGALT00000034856:7
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:
PF088066=Sep15_SelM=PU(23.6=29.5)
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:
TCTGAAGCCCCTACGGTCG
R:
GGTAACAAAATCCTTGAAGGTCTT
Band lengths:
262-2235
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]