GgaINT0001714 @ galGal3
Intron Retention
Gene
ENSGALG00000013419 | PBX4
Description
NA
Coordinates
chrUn_random:30307410-30310662:-
Coord C1 exon
chrUn_random:30310589-30310662
Coord A exon
chrUn_random:30307652-30310588
Coord C2 exon
chrUn_random:30307410-30307651
Length
2937 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCCTCTTTATATCTACCCAGTGT
3' ss Score
6.99
Exon sequences
Seq C1 exon
GAAACACGCCCTGAACTGCCACAGGATGAAGCCTGCTCTGTTCAGTGTGCTCTGTGAGATCAAGGAGAAAACAG
Seq A exon
GTGAGTTACTGTCATTTCTACTCCTAATCTTCCCCCACAACGCCGCTTCTCCCCCCAAAAAATACCATCCCTCGTTCAGTTTTGCTCTCATTCACCACAGCCCTCATTTTCCCAATGGGTTCTATGACTTCTGCTGCTTTTCATGGTGCCTTTTTGGTGCTTATTTGGAGAAAGCAGTGTTTGAGTTCCAGGCCATGGAAGCACTTATCCTCCCTCTTGGTTTTTTTTCCCATTTTTTTCCCATGTGTTTTTTCCCCCACCTTTTTCCTGTTTTTCTCTTTTCCCCATATTTCCTGATTTTTGGGTTTTTTTTTTTTTTTTTTTTTTTGCATTTTTCCATGTTTTCCTCCATTTTTTCCCCTCTTTATTTTTTTTTCCCTAATATATATATATATTTCTAATTTTTTAATTATTATTATTTAAACTACTCAGTAATGGACTGAGTGTCTGACAGAGCTGTGGTTGCCTCCGTTCAGTGTGGGGAGTGGGAGTTGGTGGTCTTCAAAAGATGCCTTCAAACCCAAACCATTGTCTGATTCTATGACCTTAATCCATAGAACCAAGGAATGGTTGGGTTGGAGGGGTCCTTACAGGGCAACTGTGGAGTGGTTGGGATGGACGGGTCCTTACAGGTCAACCATGGAGCGGTTGGGTTGAAAGGGTCCTTAAAGATCAACCAGGGAATGATCCTATACTGCGTAGGTGGGCAGAGTGAGGGTGGGTCAGTGGTTGGACTTACGGTCTTAGAGGTCTTTTCCAACCTTAATGGATCCATGAATGGATGCAGTGGTGATGGGCTGACATTTGGACCCGATGAACTTCGAGGTCTTTTCCAACCCTAAAGATCCCACGATTCCAAAATCCCACCCCAACACTCAATCCCAAGATCTGACCCCCCAATCCAGCTCCAAAATCCAACCCCAAAACAGGTTTGACAGTCAGAATCGATGATCCTGGAGCTCTTTTCCAACCTCAGTGATTCTGTGCTTCTATTGCCCCAAGGATATACTTCGAGTCGGTATAAAAGTCAGCTCTCCTTTCACCTGACAGTTCCAATGCTCGAGTCAGAGCCATCAGCTCAACATTCAGAGCCAACATATTGGCTGGCAAAGGTTGTTTCTTCCTTTGGGGTTATAGTGGTGCATCCAAAGCTTTCCATTCCCTTGAACTACTCCATTGGTGAGCAGCTCCCATTCATGATTTTCCAGGAGGGATCTGTTGGGTCTGGGTACACCAATCTGTTTGGATCAACATTGGTGATACCACCTGGAAAAACACCTTTGCATTCTCCATAGGTATTCTGTGCTTAGGATGGTACAGACGGTTCAATTCTGGCCCTAAAGAGCCCATCTACAAAGGTGAAGCCAACAAATGCACATCCGATGGGTGCATCCACTTTGCTTTTCTGCATTATTTGCTCCGTGAAGGAAAATCTGCAAAGGGGGGGGGGGGAAACAAACAGCAAAACTCACAGCCAAGTGTGCACCACTTATTTCGGTACCACTAACCTCATTACAGAACCACAAACCTCTTAATTAACGACACGCAAAATATATGGCCGTGATTGCATTTGCATACTGAGGCTTCAACACCGTAGGCTGCGATGTGGTTTAATTAAGGATTAATTAGAAACGACGGGAATTTCACATCACTTGGGGTAATGGTTTTGCATATTTGACAGATATCAGTAGGGGATGTGCAGGAAAATGGGAAATTTGTGTTTTCTTGTATGTAAAGAGAAGCAATGAGTTCCATGAGTTTCTTTAGTTGTGTTGAACTTATTGGGATGAACTATGGGGTTGAAAGTGCAACTCATTAATGCTAATTAACTCCTCTCTAGTTTCTTGCTAGCCCCAACCAACCAGATTCTTCCCTTGAGGTTGTGGGAGTGCTTTATTCAGCAGTCAACTTGAGATGAGCTGATGCGTAATTGATGATAACGAATGTCTAATTACCATCATTAGATGGGTGACATAAAATTAAGCTGCAGCTGGGAGCTCGACTCCAACACGAGGTGTGCTGATGTGCATCACAATGTGTGTAAGGAGATGAGAATGTGGCACCCAAACACCTCTTCCACCACACTGACGCTTCCCAGCCCAAATAGTTTCACGTGAGCTTTGTCTGACAGAGTGAGGAGTGTTCTTCTGGGGGATTTTTGGGGTCCCTTCCAACCCAACAGTGCTGTGGTTCTGTGATCTTTAAGGACCTTTCTAACCCAACCCAACCCCGTTCCACGGTTCTGTAATCTTTAAGGACCTTTCCAATCCGATCCATTCTATGATTCTGTGATCTTCAAGGACTCTTCCAACCCAACCCATTGTATGGTTCTGTGATCTTTGAGGACCCTTCCAACCCAACCCCATTCCACGGTTCTGTAATCTTTAAGGACCTTTCCAACCTAACCCATTCTATGATTCTGTGGTCTTCAAGGTTCCTTTCAACCCAACCCCATTCTATGGTTCTTTGATCTTCAAGGACCCACCCAACCCAACCCATTCTGTCCTCCCACAGTTCTGTGTTGTCGGATGGCATTGGAATATCCCTGTGGTCACTTGGCAAAATGTGGCACTGTCAGCACTTCGGGGTGTGGGCTGTTGGTGGTGATGGTGCTGTCTGTTGGTGTGGCCTTTTGCTGGAGCACTGTGGTCTGTTGTTGGGTACGGTGCGGTCTATCATTGGAGATGGCCTCTGGCTGGCAGTGGTGTAGTTGTACCCTTGGCCCCAAGTGTGTCTTTATGATCCCATTCCCCATTTCTCCCTCGGATCCATGCTTTCTCTATACATACTCTACCACACCTTTGTTAAATGCTCCTTCTTTCCTCGACCTGGAGATAGAAGTCTACTAAAAAAGGTCTTTAAATGCTCTACCACTGAAGCCGACGCTCTTCCCCGTCCCAGAAATAACCTTTTGATTCCCTCTTTATATCTACCCAG
Seq C2 exon
TGTTAAGTATTCGTGGTATTCAGGAAGAAGACCCCCCCGATGCCCAACTAATGAGGCTAGATAACATGTTGCTGGCGGAGGGCGTCTCCGGCCCCGAGAAAAGAGGAAGAGGAGCACCGATGGCTGTAGCAGCAACACCAGGTGGCTGTCCAAATGACAATAGCATTGAGCACTCTGACTACAGGGCCAAGCTGTCACAGATCCGACAGATATACCACTCTGAGCTAGAGAAATATGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013419:ENSGALT00000021886:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=0.679
Domain overlap (PFAM):
C1:
PF037928=PBC=FE(12.8=100)
A:
NA
C2:
PF037928=PBC=FE(41.0=100),PF070286=DUF1319=PU(43.6=50.6),PF040917=Sec15=PU(43.1=34.6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]