GgaINT0126289 @ galGal4
Intron Retention
Gene
ENSGALG00000000972 | PBX3
Description
pre-B-cell leukemia transcription factor 3 [Source:RefSeq peptide;Acc:NP_001025849]
Coordinates
chr17:9810154-9811970:+
Coord C1 exon
chr17:9810154-9810344
Coord A exon
chr17:9810345-9811834
Coord C2 exon
chr17:9811835-9811970
Length
1490 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GTTTTCTTTTCTCATTTCAGAAG
3' ss Score
9.94
Exon sequences
Seq C1 exon
GCATGTAATGAATTTACTACACATGTGATGAACCTGCTCAGAGAACAGAGCCGAACGCGTCCCATTTCTCCTAAGGAGATTGAAAGGATGGTGGGCATCATTCATCGAAAATTCAGCTCCATCCAGATGCAGCTCAAGCAAAGTACTTGTGAAGCAGTCATGATTTTAAGGTCGAGGTTCCTTGATGCCAG
Seq A exon
GTAAGGCTGAAATGACTGCTTCTGCTTTTCTGGGGTGGAGGGGCTTCTGCTGGCATTGTTTCTGCAGAGCACTGTTCCGTCACTGCAGTTAATTTAAGTGGCTGCAGGTACCAGCATCTCCCAACATAGGGCTATAACCAGTCCCACAACACAGCCAGGTTACCTGGGAGCAATGTGCCACAGCCTGAGGCTGGCTCTGAGTTAGCAGCTGCCTGCACCTCAGGTAAGAAAAGGTGTTCATGCTTCCAAAGGCCAGATCTGCTGACCCCTGTACCAACAAGCTGTCATTTGAGTAGGGTAGATAGTGGCTAAAGAGGGGCTAACAGCCTGATTTGCTGGGGTGCCCCAAGAAGGTGGGATACTGCCCCAGCACTGTCCCTACCACAGGAGCCTGGCAGCTGGCTGAGCCCTGCAGTGCAGGGAGAGCCCATGTGGAGCCTGCAGTTATCAGCCAGTGCCTGCTTCACACCTGAAAGCTGTGAGGAGCTAAACAAGAGCAAAATAATTTTATTAACAAGGAGGTCACTGGCAGGTGTGGCAAATTAGGGTAATTACAAACAGTTGGAGGAAATGTCTATGGAGAGCTCCAGTAACTGCAAAAGGTAAAGCTTACAGATGCACGTTTTAAAGTGATTTCTTTAAAAAGAAGGAAGGTAAATAAGGCAAAATGAGCGGAAGCACAGTAATGAGATAAATGCAGCTCTAGGGAGATTCTGCTTGCTCCAGGATACGGCGTTGTTAGCAGCGCTGCGATACTCCTGGAAGAGAGCACTGGGGATTGCTGCTCAGCTGCCTGCTGGCCCGCAGCACTGCTGGTGATTGCAACTCAGCCTGGAGGGAAAGGAGCTCTGACAGAATGTCTAACTGGAGACTCTGTGAGGAGCTCTCAGGGTGGCAAGCAGCGTGTCCCAGCGTGGAAGAAAGTAGCTGTGCAGGTGCTGCTGCCATGGCCCTCAGGGTGGGCAGGCCGTGGCGTGCACCTCAGGAAGTGCCTCAGTACTGTGGCCTGTGCTGCCCTCAGCAGTGTGTGCGGGCCGGTTGGCTCCCTGGGTGCTGGATGGGGATGTGGCATGCAGGCGGCCCTGCTATGCCCACCCCAGCAGCCCTTTATGGGAGCCCTGGCTGAACGGGTGAGGGGAAGGGGCTTAGTGATGCTGTTGTCAGCAGTGGAGATGTAGCTGTGGAGCAGGCAACGTGCTCTTTTGGGCTGAGGCTGGGCGCTGCCCGGCTCCATGCCTGCTCTTGCCTCATCTCCTGCTCTGCTGCCCCAGGTCTCAACCTGCGCTGTGTGGGAGTTGTCTGTGTGTCCCTGGGAGGAAGGCCCCCGTGCAGGCTGGGTGACATTGGAGGCAGCACTCAGACCTGGCAGGGTCAGAGCCGCAGCCCTCAGCACAGTGGTGGTGGAGCCGGGGGTGTGGAGGTGGCTGTGTGCTGTCCTGCTGGAGCTCTGTTGGTGTTGGAACAGCCGTTGTTTTCTTTTCTCATTTCAG
Seq C2 exon
AAGGAAAAGACGCAACTTCAGTAAACAAGCCACAGAAATACTGAATGAGTATTTTTACTCCCACCTCAGTAACCCTTACCCCAGTGAAGAAGCCAAAGAAGAGCTGGCAAAGAAGTGCAGCATCACAGTATCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000972:ENSGALT00000001436:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.234 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF037928=PBC=PD(31.0=95.3),PF040917=Sec15=PD(61.0=73.4),PF0004624=Homeobox=PU(0.1=0.0)
A:
NA
C2:
PF0004624=Homeobox=PU(75.0=97.8)
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:
TGAATTTACTACACATGTGATGAACC
R:
CTGCGATACTGTGATGCTGCA
Band lengths:
319-1809
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]