RnoINT0107851 @ rn6
Intron Retention
Gene
ENSRNOG00000010736 | Pbx4
Description
PBX homeobox 4 [Source:RGD Symbol;Acc:1305100]
Coordinates
chr16:21306016-21308959:-
Coord C1 exon
chr16:21308824-21308959
Coord A exon
chr16:21306170-21308823
Coord C2 exon
chr16:21306016-21306169
Length
2654 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTCTGTCCATCTATCCACAGGTC
3' ss Score
12.18
Exon sequences
Seq C1 exon
GCGCAAGCGGCGGAATTTCAGCAAGCAAGCCACCGAGGTGCTGAATGAATACTTCTATTCCCATCTGAGCAACCCTTACCCCAGTGAAGAGACCAAGGAAGAGCTGGCCAGGAAGGGTGGCATCACAGTGTCCCAG
Seq A exon
GTGAGCCCTCCTGCCCTGAGGAAGTTAAGTCTTATGAGGACAAACTCCTGGAGAACTACTCGATGTTGAGGAGGATTGCTGGAGAAGTTACTTAATGTATGATGAAGACTCCCCAGGAAGCTCTTACTGTGGGGGGAGGACTCCTAGGAAAGTAAGTTAATGTGGGAGAAGGGAAGACTCCTGGGAAAATTATTGAATGTGTGGGGAGGACTCCTGGGAAGTTACTGTGTGGGGAGGACTCCTGGGAAGTTACTGTGTGGGGAGGACTCCTGGGAAGTTACTGTGTGGGGAGGACACCAAGGAAGTTACTGTGTGGGGAGGACTCCTGGGAAGGTACTGTGTGGGGAGGACTCCTGGGGAAGTTAATCAATGTGCAGTGCTGGTCATGTGCCTCAACCTGGCTCAGCTCCAGTCTGAGCTGTGCACAGTGAATTAGAATGTTGGTGGGGACTCTGCTCCCTCTCCTTGCAGAGAAGTGTAAGAGTGTCATGGTGTCGCAAGGCACCGGTGTGAGCTCTAGGAGACTGAAGCAGCTCAGGCTCCAGGACGTGTTTGCGGCAGGAGCAGTGGGTGGCATGAGCTCCCGTGGGGGAGTGAGATTCCTGACCCTGTGGCTTGGCAACAATCACCTTTGCCTTCCTTGGAATTCGAGGCAAAGGAGGGAGCGAGCAAAGGCCAGAGTGCAAGGAGAGCATTCCTGAAGGTTTCAGAGTGAGTTCAGGCAGCAGCGCAGTGGCAGGAAGGTGGGGCAGAGCCCTGGAGCAAGGAGTGTGAGCTGCAGAGTGGGCCTGCCCAGGTCTCGGGTCACAAGAGCAGAGCTCCTCTACCTCTGCCACCCAGTGGTGATGGACACTGAGACTGACATTAGTCACCACAGCCTGTCACATGCCCTATCCCTCCTAGCTTCACAGCTGGAAAGGGTGAGTGTCCCGCCCTTAGGCACTGTCCTCAGCCCAGGGTCATAGAGGATCCAGGCACAGCTGCCTGCTCCTCATGTGGCCAGAGCTGAGGGAAGTGCTATCCCTCTGGGAAGGACGGCCAGTGTGGGTGTTTGGGCACCTGGGACAGTGTGCATAACAGGCAGACCCACCCCACCCTCGTGCCCGGGGCTCCTTGTCTTTGGTGCCAGGTCCTCCAGAGAGCAAAGTAAGCCAGGTTCAAAGGCCTTGCCACATTGCAGGGTCTCCTGGGTGACCTGGGCCCTGGGACCATCCCCACCAACTGAGTTCTAGAAGCTCCACCCCACTTTGTCACATCCCCTAGTAGGTGTCAGGACTAACGTGGCCAGCCGCATTAACTGAGGTTTTGAATTTGGGGTGCAAGTGAGTAGGCCATGAGGTGCACCTCAGAAATCAAGAGGAAGGAAGCAAACATGGTTAGGGCACCTCAGGCTGAGGAAGCCCCAAGAGGAGCTGAGCTGAGGCTGAGGTGGGGTCTCCCTGTGAAGACAGTTTCTTGCCAGTTACGGAGTCCTCGACTCCCTCTCAGCAGTGCCCAGACGCCTGACTTATCCACACTGAAAGTCTGTTCTTCGTTTGAGCCGAGCAGTTGGGTAGCCTGCGTCCCAGCTACACAGGGAGGTCACTCGAACCCAGGGTCCCATTCCCTCTGGGTAACACAGCTAGATCCTCATCTCAAAAAGAAAATACAGGGCTGGGCCTGGCAGAGCATCCCTTTAATCCCAGCCCTCAGGAGATGGCAGGCGGATCAAGGATAACCTGGTCTACACAGACAGTTCCAGGACAGCCAGGGCTACACAGAGAATCTCTGTCCCGAGGGGGCAGGTCCTTTTCTAGAGGACCTGAGTTCAATCCCCAGCACCCACATGGCAGCACACAGCCATCTGTAACTTTAGTTAAAGGATATCCAATGCCCTCTTCCCACCTCTAGGGGCACCAGACATGCACATGGTTTACATGTATGCATACATGCATGCATGCATACATACATACACACGCACGCGCACACACACACACACATATGCAGGCAAAGCACCCAAGCACATAAAACAAAATGAAATCATCTTAGAGAGCACTTAGCACCCTGGAGGAGGCATGGCCTTCCCTGCAGAGCAGGGAGCCCCTCAGTTATCTGGGCCCTTTCCCTGTTTTGTTCAGTTAGGTTAAGTGTTTTAGCCAGAGCCTCACTCCAGCCTAGGTTGGCCTTGAATTTACAGCAATCCTCCTGCTTCAGCCTCCCAAAGTCTAGGGTAACAAGTGTGAGCTATTAAACTGGTGCCTTTTTTTTTTTTTTTACTAGGGTTGGTATTTTTTATATTTGTGTGGTTTTGTGTGTGTGTGCGTGTGTTTGTGTGTGTGTGCGTGCACACTCTCCGATTGCATTAATCCATGCACTGATCACTGCGAGTGTGTGGTGCCTGTCACTGCAAAAAGGGAGAAGTCTGAGGACAATTTGGCAGTTATTTCTCTCTCCTTCCACTATGTGGTTCCTAGGAATTGAACTCAGATTATCAGACTTGGCAGCAAGCACCTTTACCCAGGAAGCCATCTTGTCAGCCCCCAACCTCTTATAACCAGCACAAGATCATTCATTTGGGGCAGTAAGAGGAAAGTTCCCTAATCTAGCCTTCATACGCTTTGTCCTCTGCATGGCCTACACCAGGACAGTGTCATTGTCTGTCCATCTATCCACAG
Seq C2 exon
GTCTCTAACTGGTTCGGCAACAAAAGAATCCGGTACAAAAAGAATACGGGGAAATTTCAAGAAGAAGCCACCATGTACACGGGGAAAACATCCACAGTCACTAAGACCCGGGTCTCCGGGGGTCAGACCAGCTGCCAGTCCACACCCAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010736:ENSRNOT00000014265:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.239 A=NA C2=0.606
Domain overlap (PFAM):
C1:
PF083976=IMD=PD(26.8=71.7),PF0004624=Homeobox=PU(75.0=97.8)
A:
NA
C2:
PF0004624=Homeobox=PD(21.7=25.0)
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]