BtaINT0108062 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009975 | PBX4
Description
pre-B-cell leukemia homeobox 4 [Source:HGNC Symbol;Acc:HGNC:13403]
Coordinates
chr7:3679090-3682850:+
Coord C1 exon
chr7:3679090-3679225
Coord A exon
chr7:3679226-3682693
Coord C2 exon
chr7:3682694-3682850
Length
3468 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
CTGTCTCTGTGTGTCCACAGGTC
3' ss Score
14.08
Exon sequences
Seq C1 exon
GCGTAAGCGGCAGAATTTCAGCAAGCAAGCCACAGAAGTGCTGAATGAATACTTTTATTCCCATTTGAGCAACCCATACCCCAGTGAAGAAGCCAAAGAGGAGCTGGCCAGGAGGGGTGGCATCACGGTCTCCCAG
Seq A exon
GTGATGGTCCTTTCCTGCCACACCTCCCTGAGCCCGAAAGGGACACCCAGGGAGGTTCATCAAATGTGTGACACAGGAGTCGAATGTGGTGTGCAGCCACAGCCAAGCATGTGCAGTGCAGCCTCGGAACCAGCCGTCTGGGCTCAGGTCCTGGGTCTGGGCTACCGTGGGCCTCAGGCAGGAAGCCATACCTACCCTCCCGCGCTCCCGGGGGCAATGGGTGTGGAGTGTGCGGTCCTGATAGTACCGAGTAGTGATCCTTAGTGAATTGCAGTCAGGGATTTTTTTTAAACCTTACATTCTTTGTTTATTGATGTATTTAGTTTTGGCTGTGCCGGGTCTTCCTGCTGCGCAGGCTTCTCTCTAGCCGTGGCGAGCAGGGGCTACTCTTCACTGTGGTGCCCGGGCTTCTCATTGCGGTGGCTTCTCTTTTGTGGAGCACGGGCTCTAGGGCAAGTGGGCTCCAGAGCGCAGGCGCAGTAGTTGGGACACATGGGCTGAGTTGCTCCACGGCATGTGGGATCTTCCTGGATCAGGGATTGAACCAGTGTCTCCTGCGTTGGCAGGCAGATTCTTTACCACTGAACCACCAAGGAAGCCCAGTCGTTAAGATTTCATATTCTCATATCAGACGGGTGTGCTGTGTTCTGTAAGATGGATGGGGTGCAAGCTTAGGAGAAGACAAAGAACTTGGAGCAAAATTAGGACTTAGAGCGAGAGTAGCTCTTGTGCAAAAGCACCACTTCAGTTATCCTGGAGCACATTCAGGCATGGGCATCACCTGCCAGTTGCTCAGACAGTCCAGTGTGTGAGTCTGGGGGCACAAGACAGGCAACAGCTGGCTCCAGATGGGAAACAGGGGCGCAGGTTGGAGAAGAGACTCAGACAACTTCGGACCATATTGGGATGACTGTTCATCTCAATGGGATTGGGGTGGGGTCGGGGCTAAGGCGAGAGCCCAAGAAATACGTCAGAAGGTTTTGTTGTTTCTCTTATTGGTTGTTATCTATGCTGGGTCTTTGCTGCTTTGCACGGGCTTTCTCTAGCTGCAGAGAGTGGGGGCTATTCTAGCTGTGCTGTGCGGCCTGCTCATCAGGCGGCTTCTCTTGCTGTGGAGCTCCACAACATGGGTGCTCCAGCCTGGGCTGCTGCTCTGAGGCATGTGAGACGTTTCTGGACCAGGGATTGAACTCATGCCTCCTGCATTGGCAGGTGGATTCTTAACCACTAGGCCACCAGGGAAGCCCTTTCGAAAGGTTTCACAATGAGAACAGTTAAGTGCAGGCAGGCCGCAAGTGAGAGACCAGACCAGGCAACACCCACAGGGCAGCGTGGGGGTCGGCGCCCGCCTGTGGCCACAGAGAGGGCCGTCAGGGGCCCGGACTCAGTAAGCGGGACCGCCCCCGCCCCCCGTGCTGAGGGGAGGCTGAGTCTCCAGCCCGGCCAACCTGTGCCTTCAGTCACCACCCTCTGCCCCAGTCCCCGCCGAGTGCGGCAGCACCTTAGGGGCAGCGGCGCTCGGGAGGCCTGCGGGGTCACACAGGCAGCGAGGCCTCACAGGTGTCCTCACACCTGGAACTGCCGTGGTGTCCTCAGTGCAGAGCTGAAGTGAGGGCTGCGCCTCTAGGACCTTGAGGCCCAGAAGAAGTGGGAGGCCTGGCAGCCCATCTATCCCCACAAGCAGTTGTCTGGAAACAACCAGATTCACTTCAGGGCCTGCCACCTCAGACAGCAGGTGGGTCTGGGGTCTAAATTTCATGTGAGGAGAGAGCTCGTGACAAACAAAAGTTTGAAAAGCACTGGCCACATTCCAGCAACTCCTGCTCAGTGGCTGGGCCCTGACATCCCCACCCACCCACCAGCAGCAGAATTCTGTCCTGGGACCCCTCCCCGCTGTGGTGGTGCCTCGGTAGAAATGGCTGACAGCCGAGTAGGGCTCCAAATGTGGTGCAGGCTGTGAGGTTCACTTAAGGAGAAAATAGTGGAGCAACATTAGGCAAAGGGTGCTGCAGACGAGACCACCGATGTTTTCAGCATGGATCAGCTGCAACTGCAGGCTGAGGAGGCCCGAGGGGGAAGGACAGGAGAGTGAGCCCATGGACAGGGCAATGGGTGGAAACCTCAGTGGCTACAGCTACATGGACCAAAGGGGCCAGAGGGACTGGGCAGGGAGTGGCCGGTGACACCGAGCTGTGGCTAGCCTTGCAGAGAGGGCATCTCGCTCCTGTCCAAGGTGCTGGGACAGACCGTGTAGGGAGGGCGGACCCCAGCCTGAACCAGCTCCCCCGCAGACACCCACTTGGGAAGTCTGCTCTTTGCCCCTCTAAAATGCCAGTTGAATTCACCATGGAAAACCACTCGCCGACATTCTTCTGCAAACTTCAGCACAGACGTGTGGGTGCATTCCTTGGAGGTAAGTGGGAGCCAGGTGCTTACCTGGCTTGGCTGCGAGCAGGTCACACTCAACACTGAGGGCAGGAGAGTTGAGAGCAGGGAACACACACAGGGCTTTTTCTGTCCATGATTAACATTGAGAGGATTGTAGAGAGACGTTAAAGAAACTAATTTTAAAGGAGAAAAGGTCATCCACAGTCCTGCCATGCAGTTCAGCTGTGTGTTTCTGTTCATGAAAATGCACACGTCTCATGTGTGCATGAAACTGCAGCTCCAGGCGCCATACTTAGGGATACGCGGTGCTTCTGGCTGTGCACGTCTCCGTGCTCATACAGCTGAGTGCTGTCCAGCCTCTCAGCCAGCCAGGGACGTTTTCGTTGTCACAGCTCTTGAGGGCAGGGAAGGGCACACCTGGCCTCCAGCAGTGGAGACCAGGGATGCTGCTCAGCACCCTCAGGACCCGCCCAGAGAATGATCAACAGGGAGGAGCCCTGACCCAGAGGGCTCGTGCAGACATGCCATCAGAGCTGGGCCCTGTGCTTGCAAGATGTGTGTGACTGCAGCTCCCTCCCAACCGGCTTCGAGGACTGAAGGCTGCCCGTGCGCTGCTCCGTGCTCAGCTCCTTCCCCTGCTCCATCAGGTGGTCCTTTATCCTTTGATAAGTTTTGGATTCGATTGTGTTCTTTGCTTCAATCGCATTCCCAGAAACGCGGCTGCTGGTGCATGTGTCCCGCGTCAGGGTTCAGTCTGTTGCCTGCAGTGACCACACACTGGTCTCTCCAAGCGTGTGACACATGCCTGCCCTGCTCCCACCTCCCTCCTCATCCCAGGCTCCAGCAGCGCCTGGTCCTCAAGCAACGCAGCTCCTCCCTCTCTGTAAGCCACGCTGACTCCAGGGCGCCCCCAACACACAGCAGACATTCCCTGTGCCCAGGGTTTGTCAGTGCCGGCTTCACAGTCTCAGCCCCTCACCCCATCCTGGGGCCGCGTGCTGCCACTCAGCAACGCCCCCTCCTTGCGTGCCGCATTGCTCCAGCAGCCTTCCAGCTACTTCTGTCTCTGTGTGTCCACAG
Seq C2 exon
GTCTCCAACTGGTTCGGCAACAAAAGAATTCGGTATAAAAAGAACATGAGGAAGTTTCAAGAAGAGGCTACCATCTACACAGCCAAGACGGCAGTGGACGCCACCGAAGTCAGGGGCTCAGGGCGCCAGGCCAGCCCCCCATCGATGTCCCACTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009975:ENSBTAT00000013152:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.196 A=NA C2=0.453
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(75.0=97.8)
A:
NA
C2:
PF0004624=Homeobox=PD(21.7=24.5)
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]