GgaINT0126291 @ galGal4
Intron Retention
Gene
ENSGALG00000000972 | PBX3
Description
pre-B-cell leukemia transcription factor 3 [Source:RefSeq peptide;Acc:NP_001025849]
Coordinates
chr17:9818463-9819876:+
Coord C1 exon
chr17:9818463-9818628
Coord A exon
chr17:9818629-9819763
Coord C2 exon
chr17:9819764-9819876
Length
1135 bp
Sequences
Splice sites
5' ss Seq
CTGGTGCGT
5' ss Score
8.29
3' ss Seq
CCTAACTCTTTCCTTTCCAGGTT
3' ss Score
11.47
Exon sequences
Seq C1 exon
GTCTCCAACTGGTTTGGCAATAAGAGAATTAGGTACAAGAAGAACATTGGGAAGTTCCAGGAAGAAGCCAATCTTTATGCAGCGAAGACGGCTGTGACTGCAGCGCATGCCGTGGCCGCAGCCGTCCAGAACAACCAGACCAACTCCCCCACCACGCCAAACTCTG
Seq A exon
GTGCGTACCCACGCGTGTTGGGGCAGCCTGCAGTGAGCTCAGCAAGGCTGAGCAGCTCCCTGGCAGCGCTGCCTGGAGAGTGGGTTCGGCACTGCAGGCCGAGGGGACTGAGCTGCAGCTCCCACCACGGGTCTGCCTCGCTCTCACTGCTGGCAGCATCTTCGCTTCTGTCAATATTTTAAGTGTTCTCTGAGTCCATGAAAGTAACAGAAAATAAAGGGAGGCAGAATTCTCAAGCCTGTGTTTGTAGAACTGTTGTATTTATTGTTGAAATAAGAACATAAAAACAAAGGGATATTTTAGCATGCACTAATTAAAATTTAAACTGTGTTGCTTGACAAGGGGTTGATATTGTATATAAAAGTCTAGGGATGCAGCTTTTTTTCCAGGCTCTAACCACGTGTTCTTTTATAGTGTTTAAGAACTGTCTTGCTAGTGCGCTGTTGACATTTTGCAAATCTAAGCATTAAGTTAGCAGAGGGGGCATCTAAAGAGGAAGTCACTTTGGGGCTCCAGAGGCAAAGGTTTCTACAAAGCATAGATGTGTTTGGCACTATTTACAGCCAAGTTTTGCCACAGCATAGTTGTAGACAACTTTTTAAGGGTGTAAAGATCCATGGGGGGAAAAAAAAAAAAAAAAGCCTTTAATCAAAGGAAAGTAAGAGGAAGGTTCCTCCTCTGTTGATAGTAGATCAACTAATTAGAAACTACCAGGTACTTGTGTTTGAAGGAGATATTAAACACAGGTTCAAAGTTAGTTTTTTGGAGTGTTTCGCAATAGCATTTTAGGATGAGGTGATCCACCAGAGGAATGCACCTGGCACTGATATGTGCTGTGTGTGCAGTGCTCTCCCAGCAGTAAGGCTGCCCGGGCTCTGATGGGTGTCCCCGTTTCCCTGGCACGGTTTTGCTGTGCCCCACTCAGCGCCATGGGGAGAAGCCACGCAGGTCCCCACGCTGCACGGGCGTCCCGCCAGGCTGGCCTTGCCCTGCTGTGGGTCAGGAGTGTGGTTTCTGTTGGGCGCTGCCTTTCCTTCTTGTTTCCTTTCTTCTTCTCCTTCCCCTGCCCTGAGGTCTTTGGGGTTATATATTTGTAGCTCTCTGTTATTCAGCTACCTAACTCTTTCCTTTCCAG
Seq C2 exon
GTTCTTCTGGTTCTTTTAACCTCCCAAATTCTGGGGACATGTTCATGAACATGCAGAGTCTGAATGGGGATTCTTACCAGGGGTCCCAAGTCGGAGCCAATGTGCAGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000972:ENSGALT00000001436:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.339 A=NA C2=0.842
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(21.7=23.2)
A:
NA
C2:
NO
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:
CAACTGGTTTGGCAATAAGAGAA
R:
GACTGCACATTGGCTCCGAC
Band lengths:
270-1405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]