RnoINT0107848 @ rn6
Intron Retention
Gene
ENSRNOG00000010736 | Pbx4
Description
PBX homeobox 4 [Source:RGD Symbol;Acc:1305100]
Coordinates
chr16:21310921-21316172:-
Coord C1 exon
chr16:21316099-21316172
Coord A exon
chr16:21311163-21316098
Coord C2 exon
chr16:21310921-21311162
Length
4936 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGC
5' ss Score
6.99
3' ss Seq
TCTGCCTCTGTTCCCTCCAGCTG
3' ss Score
10.67
Exon sequences
Seq C1 exon
AAAGCATGCCCTGAACTGCCATCGGATGAAGTCTGCTCTCTTCAGTGTGCTCAGCGAGATCAAGGGGAAGACTG
Seq A exon
GTAGGCGGCTCGAAGACTCCGCCCTGGCCTCATGTGGGCGGCGCTTGTGGGCCCCTTCACAGCCCTCTGGCAGCACATGATTCTGCCATCTTTCAAAATTCAAAAACCTACAGTTTTATTCTAGCTCATGAGTGCCCACTATCCCCATGGAGAGCAATACTTTCAGGAAGGAGATGGGGGCTGGTGGGTGGCTCAGTGGATAAAGGCACTTACCACGTGATGGCCTGAGCTCGGTCCCCAGGGCCGTGTGGTGGAGGAAGAGCATCGACTCCAGCAGGGCAGCCTCTGACCTTCACACACACACACGCATGCCCCATCTCACAAATAAGAAGTAAAGTAAGTTAAATGAAAAGAGGCGTGTGGTTGGGGACAGCTCAGTGGCTAAACACTTTGCACGCACGCATGCATGAGGACAGAGTTCTGATCCCCAGCATCTGTGTAAATGGGAGGCGGGGCCTGGTGGCTGCCTGCAATCCTAGTAAGGTAGGATCCAGGGTCAAGCGAGCCAAATCAGGTGGTTCTGGATACAATCGAGAGGCCTTAATTCAGTGTGTAAGGTGGGAGGGGCTGGAGAGATGGCTCCGCACCAGCTGCTCTCTCAGAGGGCCTGGCTTCAAGTTCCAGTGCCATGTGGTCGCTCACAGCCATCCATAATATCATAGCTGCCTTTTCCACCTTGCAAGCAGACTGATCTCATGTGCACAAACATCCATGCAGGCAAGACACCAACACACTCTGTGCGCGCCTGCGTGTGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGGTAATGATCAAAGAAAACATTGATTGATGCCAAACATGGGCCTACACACACATGAAGGCTCACCTACACACACACTATATACACATAAACATGCAAAGAAAAGGCCATACCTTATAGCACAATCCGGCCATCAATCCAGGAAGCTGAGCCATGATGATTCAAGTTCAAGGTGACCCTAGCCTTCCTTATAAAACCTGTCTCAAAATTATGTAGTGCCACCCTTTAGGTGCACACCTTTAATCTTACCACTTGGGAGGCAGAGGCAGAAAGAGCTCCATGCGTTCAAGGCCAGCCTGGTCTACAGAGCCAGTTCCAGGATAGCCAGGGCTACACAGAGAAACCTGTCTCAAGAAAACGTTAAGTAAAGGCAGGTATAGAGAGTCAAGCCCTTGATTCCAGCACTCAGGAGAGGCAGCCATAGCTCTGTGAATTCAAGGCCAGCCTGGTCTACATAATGAGTCCCAGGACTACCAAGGCTACAGCATCAGATGCTGTCTCAGAACATGCATCTTAAACTTTTGATCCTCCTGCCTCAATCTCCCAAGTGCTGGGATTAGAGCTCTACACAACTAAGTCCCGGAGAGGGTATCTGCTTCCACTAGTTTCATGGCTCCAGGCACTACCTGAGAGGCAGGGGGCTGTAAGCTGCCAGAGCTTCTCCACCTGTCTGTTTCATGTAGGGGAAAGGCTTTAAACTTATCTGTTGTAGCTTATAATTGTGTCATGACTGAGAGGCCCAACGGTGTTCTACTGTGTGCTTCTTGTTTTGTTTGAGACAGTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGTTCTTTTTTTCGGAGCTGGAGACCGAACCCAGGGCCTTGTGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTGTTTGAGACAGTCTTATCCCAGGCTAGCCTCAAACTATGTAGCTAAGGCTGACCTTGAACTCCCAGTCTTCCTGCTTCTGCTTCCCCAGCGCTCAGATGCCACTCACTGCACGAGGCTTATGCAAACCTGGAGGATGCAGGACTTCATGCATTAGACAAGTGACCCACTGACTTGAGTCCCTGCCACACTCCACTATGTGCACAGATCACATTTTGTGCATCTGTGCTGTGTACCACATGTGTGCCTGGGAGATGCATGGATGTGCCCTATTAGTCACGGTAAACAGTGCTGCCGATACCAGGCGTGTGCAGACATCTGTCTGGGACCCTGAGCTTCTTATTTTTGTCTTTTTCTTTTTGGCAGTGCCCAGAGGGCCTATGAATGCTCTGCTGGCTTAGTTCCTTCTCTTGCTGCTGGGATAAAAACCCCTGGCTAAAGCCACACGAGGTTTGTTGTGGCCCTTGGTTTAGGGGACACAGTCTACCATGGTGGAGGAACATGCTGGCAGCTGGAGATTCTGTGCATAGACACAGAGCCTGGACCAGTGGGTTTAATACTTGGGACCCAAATAGTGGGCAGAAAGAACAAACCATACACACACACACACACACACACACACACACACACACACACACACACCACAGAGGGAGGGGGCACTAAAGAGAAATAAGAAAAAATTAAGGAGATTTTTTTTAAAACTCGTGAGTTTGCAGAGCATGTTAGACATTGAAACCTCTCCTCACTGTGTTCATCCTAACTCTACTTACTAGTGCAGTGAAGACCTTGTTCGGCTTGTATAGTGCCTGCTTGTCTCCTCAGGAGGTGGAGACAGAAGGATCAAGGGTTTAAACCTAGCCTGGGCTGTATGAAGCCCTCACTACCACTACTCAAAATTAGTAAAAGCTGGGTGTAGTGGTGCATGCCTTTAACCCCAGCACTTAGGAGTAAGAGGGAGGGAGGTCTCTGAGTTTGAGGCCAGCCTAATCTACAGAGTACCAGGAGAGCCAGGACTACAAAGAGAAACCCAGTCACAAAGCAGGAGAGCAAAGGGGTCTCAGCTCTACTGCACCAGAAAAGGCCAAGGTTCAACTCAGAGAAACTTCTCCTCGGTCTGACCTCTGATGCCCACAGCGCATTGAGTCATGGCTAGGATATAATGGTAGATAGAGGACACAGAGCAGCTACACTGAGGAACATAAGGAACCATGGAGTACACCCACACTGAGAGGTGGGCGATTGTCTGTGTGTACGTCTGCATCTCGTAAATCCCAGGTGCCCAAGGGAACCAGAGGACAGCATTGGGTGCCCTGGAACTGGAGTTAGAGATGGTTGTGAGCTGCGTGTGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGATGGTGCTTACTGTGTGGAGGTCAGGGGGCAGTGTTACAGGAGCCTAGTTTCTCCCTCCACTCTGTGATCTTGGGAACTGAACTCAGGTCCTCAGACTCGGCAGCTGCACCTTTATTTACTCACTGAACATCTCACCAACCTGGGAATGCTCTTTTAGGTTCAGTTTATCAAGACAGGGTTTCTCTGTGTAGCCCCAGTCTGTCCTGGAACTCACTCTGTAGACCAGGCTATCCTCAAACTCAGAGATCCTCCTGTCTCTGCCTTCCGAGTGCTAGGAGTAAAGGTGTGCACCTCCACCACCCGGCCTAAAGATTTTCTTTTTATAATGTGTGTATGTGTGTGCGCGCGTGTGTGGGGATGCGTGTGCATGTGTGCGTGTGTGTGCATGCATGTATGTGTGTGTGTCTGCTGAGTGTGTGGCATGTGTGTCTGTGTGCAGGGTGTGTAGTATATTTGTATTGTGGTATGCATGTGTCTGTATGTAGTATATATATATGCACATGTGTACACACATGTGCAGGAGTCAGAGTTGATATTAGATACCTTCCTTGATTGGGTTTCCCTTATTTTTGTTTTATTTTGAGATCTCACTGTGTAACCTAGGCTGGCCTAGAACTTATTTTATAGACCAGGCTGGCCCTGAAGTCAAGACATTGGCCTGTTCTGTGTCTCAAGCTGACTTGGAATAAAGGTGTACACCACAGTGCCCAGTCTTTTATAAGATGGCTATGTTTATTTATTTGTTGGGGGTGATTTTAGATTTTATTTCTTATTTTATGTGTATTAGTATTTGCCTGGATGTATGTCAGCACCATGTGTGTGCACTCTCAGAATTACGAACAGGAGCCAGCTCACTGGACGAGTGCCACCCCACCACACACACACACACACACACACACACACACACACACACACACCACACGGACACACACACATTCACGGATTCACGGAGACATTGACACTCACGGGCACCTAGTAGAAACATCAATACAATACTGTGCCTGGTCCCCGTGATAAGCTGTTTGCCTTTAATATCTTTTCACGTGTATTTATGTTGTAGGCGGGAAGGGAGAGGCATGTGTATTTTGAGGATGAGTTGCAGGGCTTGGCTCTCCTTCCACCACGTGCGCCCTGGGGATTGGGTCCATGGGGCTTAGCAGTGAGCTCCTCTACCCACTGAGCCGTCCCACCAGCTCAGCGCCTGCCTCTGCCTCTGCACCCACATCAGCGCGCCCCCTCCCCCAGCACTTAGGATGCTCGGCTCACTCAAAGCTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTGTTTGTTTGTTTGTTTCAGGAGCTGGGGACCGAACCCAGGGCCTTGAGTTCGCTAGGCAAGCGCTCTACCACTGAACTAAATCCCCAACCCCCCAAAGCTTTCTTAATACAAGGCACCTTCCCTGAAACCCACCCGGTTGTATTCTGACATGGTTGTCCAGTTCTGCCCACACAGGCTGCCCTGTCTCAGGGTCCTCCCCCCAACCAGGACTGTGCACTGGGATTGGCGTCCCAGTAGGTCACGAGGCGTTCCTGATCCAATGGTAATAAAGGACCTGGAGGGTGGCCTGCGTATTTCCTGCACTGGCAGAGGACTGAATTCAGTCCCCAGCACCCACTCTGGGCACACACAGCTGCCTTGAACCCCAGCTCTAGGGGTCTGACATGGTCTTCCTGGACTCCCAGGGCACCTGCACTCACACACACGTATGCATAATATTTTTAAGTGATGCCCAGCCATGGTGCAGTACCACTTGGTCCTGGCCACTTTTCTCTGCAGAGAGCACATCCTGGTCTGCCTCTGTTCCCTCCAG
Seq C2 exon
CTGTGAGCGTCCAGACGCAGGAAGAGGACCCTCCCGATGCCCAGCTGCTGAGGTTGGATAACATGCTGCTGGCTGAGGGTGTGTCCAGGCCAGAGAAGCGAGGACGAGGAGGAGCAGCGGCAGGCAGCACAGCAACACCAGGTGGCTGCCCAAATGACAATAGCATTGAACACTCAGACTACAGGGCCAAGCTGTCCCAGATCCGACAGATTTACCACTCAGAGCTAGAGAAGTATGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010736:ENSRNOT00000014265:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.269 A=NA C2=0.716
Domain overlap (PFAM):
C1:
PF037928=PBC=FE(12.8=100),PF070286=DUF1319=FE(14.9=100)
A:
NA
C2:
PF037928=PBC=FE(40.8=100),PF070286=DUF1319=PU(32.9=34.6),PF083976=IMD=PU(20.3=30.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
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]