GgaINT0037459 @ galGal4
Intron Retention
Gene
ENSGALG00000003429 | PBX1A
Description
pre-B-cell leukemia transcription factor 1 [Source:RefSeq peptide;Acc:NP_990077]
Coordinates
chr8:5196891-5198533:-
Coord C1 exon
chr8:5198421-5198533
Coord A exon
chr8:5196981-5198420
Coord C2 exon
chr8:5196891-5196980
Length
1440 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GTTGTCGTTGGTCTGTTTAGGTG
3' ss Score
7.27
Exon sequences
Seq C1 exon
GTTCTTCCAGTTCTTTTAACATGTCAAACTCTGGAGATTTGTTCATGAGCGTGCAGTCTCTCAATGGGGATTCTTACCAAGGGGCCCAGGTTGGAGCCAACGTGCAGTCACAG
Seq A exon
GTAGGGACCCATCCGATGTACTGCCAGTGAATGCATTAGTGTTGGAAGAGCCTTTGATTGTATTGGCACTTCTCCCTCCCGTCCGAAAAGAGCAAATTTCAACCAGCACAAACGAACCAACCAACACTTAAAAAAAAAAGTAAAGCAAACCAAAAAACCAAACCAACCAACCAAAAAAAAAAAAAAAAAGCAAAGGCAACAACCACCCAAAAAATCAATCAAAAAGAAACCAAAACCGAACACCCAACCAAACCAACCATGGTCTTGAGGAGACTTGCCCACACTTTGTGAATGCATTTGGCTCTGGCTTGATAGTCGTAACAGGAGGAAAGGAGGTTCAGGAGAACAGGCATGTACTCAAACAAAAGCAGATGAGGTTTAGGTTCCGCTTGCTTTATTCTTCCAAGGAAAGGGGTCAGATGTCTGGACCGGTGTCTCGTTTTACATGGCTTCCACTTACTCCTTTGATGCCAAACCAGGTGTCTGCTGCAAGGCAAGAAATGTTCAAATACACAGCTAGAGTTGTTTTTTTCTTACTTTTTTTTAAACTAAAAGTCACCCTTCATCATCTCCCCATATTCCCAAAGCGCAGGCACTCACACTGCCCATGTACACACCAGCAAGACAGAGTGAGGGAGCTTTGAGCAGCGTTACTGAAACATCAACCTATGCTTAAAGAAGAAAGAATTTAAAATAGCCGGTAGTTCACTCAGATCTTCCCCTTCCTACCTGATGTCCAGATATGCCATGAGTCTTCTCTCAGGTGTCTAAGGCTCTGTGTTCAGAGATGACAGCCACTCTGACATGTTCACATTGGGCAAGGAGAGCTTTCTAAAGCCCAAGTCACTCCCCTCGCAGTGCTGGACTCAGAGATGCACGTCACTGTGCTTACCGCTGCTGGGGCTGGGCTGAGTAGTGGAGGGAGAGGAGCGAGGCACACAGAGGTGAGCTGACGGTGCCTTACCATGGTAGGTATATTCTGTCTGGGCCCTCTGAAATGGAAGGAGGAGCTGTCTTCACCCACCTCCAAAGATCTCCTTCCACTAATGTGAGTTCAAAGGGTGGAAGGGGATAGGGGCAGGACTGTGGGTCCTTGGGCACGATGCTGGAGCTGGCCACAGCAGTGTGCTGCAGGAGGTGCCAGCCTGTGCTTGCCACGCTGTTCTCCCTCTCCACTCTTGGCGTGTAAGGGCTTGGGGCCACCAAGAGTGTGACAGGGGTAGGCCACCGCGGGAGGCAAGGGAGCGCTCCTCCGACTTGGCTCTCACTGTGAGTCCAACCACGGTTCTTTTCCCCCTTCTCTTTAAATACGTACCTTTATTAGTGCTATTATTACTACTGTTTATTTGTTTGACCATGCCAAAGATGAACCGAAGCGGCTTTGCCCACTAACCTTTCATTCACTCTAATTTGTGTCTTTGTTGTCGTTGGTCTGTTTAG
Seq C2 exon
GTGGATACCCTTCGCCATGTTATCAGCCAGACAGGAGGATACAGTGACGGACTCGCAGCAAGTCAGATGTATAGTCCGCAGGGCATCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003429:ENSGALT00000021887:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.342 A=NA C2=0.688
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTTCTTCCAGTTCTTTTAACATGTCA
R:
TGATGCCCTGCGGACTATACA
Band lengths:
201-1641
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]