BtaINT0108063 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009975 | PBX4
Description
pre-B-cell leukemia homeobox 4 [Source:HGNC Symbol;Acc:HGNC:13403]
Coordinates
chr7:3682694-3683304:+
Coord C1 exon
chr7:3682694-3682850
Coord A exon
chr7:3682851-3683197
Coord C2 exon
chr7:3683198-3683304
Length
347 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
TGACCCTCCGACCCCTGCAGGCT
3' ss Score
8.76
Exon sequences
Seq C1 exon
GTCTCCAACTGGTTCGGCAACAAAAGAATTCGGTATAAAAAGAACATGAGGAAGTTTCAAGAAGAGGCTACCATCTACACAGCCAAGACGGCAGTGGACGCCACCGAAGTCAGGGGCTCAGGGCGCCAGGCCAGCCCCCCATCGATGTCCCACTCCA
Seq A exon
GTGAGTGAGGGTCAGTGGCCCCCCGAGGCTGCGCACACCGAGCCGCTTCCAGGGCAGCTGCCGGGCCCTGCACACGCCTCTCCTCTGCTCACATTGTGGGGTTTCCGTTCCCACTGGAGATGGTCCCCATCAAGTCACACAGCCCCGCCGGCTGTGCAGGTGCTGTGGGGACAGAAGGTGCACCCCAGAAGGCTGGTCTCCCCACCCACACAGGCTGCAGGAGGGCTGGGAGCCGTGGGAGTCACGTTCATGGCCTCCTCCTGACCCAGGGGCTGGCGAGTGCCACCTGCGGCATCGCTGCGCCTCCCAGGGCGGGAACGCTGGTCCTGACCCTCCGACCCCTGCAG
Seq C2 exon
GCTCCTCTGGCCCATTTCCGCTGACTGGCCCCGGAGACGCACTTATCCGCCTGCAGACGCTGGCCTGCGTCCAGCCCAGCCCCCGGGGAGGAGGCCTTCTGGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009975:ENSBTAT00000013152:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.453 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(21.7=24.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAACTGGTTCGGCAACAAA
R:
CCAGAAGGCCTCCTCCCC
Band lengths:
256-603
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]