RnoINT0107842 @ rn6
Intron Retention
Gene
ENSRNOG00000022162 | Pbx3
Description
PBX homeobox 3 [Source:RGD Symbol;Acc:1307198]
Coordinates
chr3:13270114-13277601:-
Coord C1 exon
chr3:13277411-13277601
Coord A exon
chr3:13270250-13277410
Coord C2 exon
chr3:13270114-13270249
Length
7161 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CCTCCCTGCTTTTCTCGTAGACG
3' ss Score
9.91
Exon sequences
Seq C1 exon
GCATGTAATGAATTCACAACACACGTGATGAACCTTCTCCGAGAACAGAGTAGAACGCGTCCCATTTCCCCGAAAGAGATCGAAAGGATGGTGGGCATCATCCACAGGAAGTTTAGCTCCATCCAAATGCAGCTCAAGCAGAGCACGTGTGAAGCAGTCATGATTTTAAGATCAAGGTTCCTTGATGCCAG
Seq A exon
GTATGTGAAGCCGTGAACTGTTTGCTTGGCTTTTTCCCTTCACCCCTCCTAGGTTGTTTCCAGAGAAACTGTCTTAAAGTCTCCATTACTTTGGCTATATGACCTCCTTTCTGTGAATAGACAGGTGATGCACGTCATGGAGCCTGTGTGTCGGTGCCGCCTTTCCTTGTATAGCTAGGTAGCTGCCGACTGAGCGACTCTGAGAAGTGGGTTCCAGAGGCTTTGGAACTCACTACATCCTTTCCTTTCTGACTCCAGAGCAGTGTTGGCTTTTATTTCTGTCGTTTTTGTTTTTTAAATGAAACTAATAAAGGTTTGCTTTAAATAATTTTTTAAAGATTATTTTTACTTTCTCCGTGTGGGGTGTTCTGCCTGCATGTATGTCCTGTGTACCAGTGTGTGCAAGAGCTCATGACAGTCAGAGGAAGGCATCAGGTCCTCTGGAACTGGTGCTGAGGACTGTTGTGAGCCACCCTCTGAGCGCTAAGAACTGGGAACCAGGTATTTTGCTCTCAACTGCTGAGCCATCTCTCCAACCCCTCTAAGAATTGAACATTTACTCTGCTTATGTCTACTGTCTGAAAACACCCGAGACAGTGATAGTCTAGAGACGCAGCTCTGCTTGATTGATCACATTACCATAAAACACTGGTCTCTGTCAGGCCAAGTGAGAAAGCCTGCTAGTGTCCCCCGTGTGGTGTGAGTTAACGGACGGGATGTGGTAGTTAATTGTCTATGGTGACCTACGGAATGTCACGAAGAGCTGTCAAGGACTTAGTCCAGACTGACTGTGAAGATGCCTCTGGGGCATTTCTCAAGCCACAGGTCAGTCCAGCTTTGGAAAAGAATTTCTCTTTTTTCTTGTTTTCTTCTCTTCTTAGATTTTGACAGAAGCCATCATTTTCATATAGATCCCATAACATTAACACAAATATGTGAGGCATTGTTTCAGCTAGAAAACTAAGGGTCTGCCAGACCTGTGTAAGATTCAAGCAGACTTCTCCTCCTAACTTTATACTGTTTTCTAATTAAGCAAAATTCTGGAGCCCCTGGCCCTGCTGAACTGGTCACCAAGACTCTCAATGTTTTTGTTTGTTTGGTTCTTTTGGTGTCTTTTGTACTAGCTTTTTGCTTCCCTCTCTTAAGACTAGTGGTTCCCGTTGATCCTTTTGTACATAAGCTAACGCGCCCCTTGCACAGGCCTGTCTGTCCCCAGGCTCAGTCCCCACAGCTCATTTTTATCATCTTACCCTTAGTACCAACCACTGTGGTGCTCTGATGCTTGCTTAAGCTATGGTAGCCTGTTGGTTTGGGGAGTACAGTACACTCTTGCCTGTTCTTTGTTGTTGTGAAGATCTTTAGTGTTGAATTTTTTGTTTTGTACTGAGGATCGAACACGGACTTATACGTGACAGGCAAGCTTTGTTCCAGTGAGCCACACCCTGAGCCCCTATAAAAGTGCTTAGTTTGAAATAGAATCTCAGTTGCTTCAGACTCCACAGGCATTGGGATTACAGGCAGATGGCACCACACTTCACAGTTTTTACGGTTTACTATTATTTCTAGTTTGAAAATACCAAGATCATTGCACTAAGTTTGGAAAATACATAAACTAGAAGAGAAAGAGGGATAAAAGATTTCAACATTTTGGTCTAATAGAAAAGCATTGTGACTGTTCTAATGTCTTTTCATCTGTTTGTTTTGAGACAGGATCTCTGTGAGGCCCTGGCTGCCTGGAACTTTCTTTGTAGACCAGGGTGGCCTCAAACTCACAGAGATCTGCCTGCCTCTGTCTCACAGTGCTGGCATTAAAGGCTTGCACCATCACTCCGGGACCCATTAGCTTATGTTTTATCATTTTAATTATTTTCCCTAGTTTGCTTATAGCTTGATCCCCAACCCTTTCTTTCTTTCTTCTCCAACTACTCACTTTGCTGTGGGATGTAACGGTTGACGTAGACAAGTCAACGTCAGTTTAGCTTGCATTCACTGGAGGAAATGGATACGAGCAGGTAAATGCATACAGTTGAATAGTATCCTGTTTGATGACACAGTGATTGCAATAGGATGGTAAATCCCGTGAAAGAGAACGCAACAGAGAGGGAAACTATTCTATACTTGATCTTTTGACCTTTCAATTGTTTTCTATGGATTACTTCTCAGAAACGAATGGTTTTTTTACTCCATTTTCCAGCTGTTTTTCATGACATGACATGCCCCGCCCCCAGTCCTCCTGTAGGCCAGTCATTGAAAGTTCAAATGACAGCGAGGGTCTTCTTTATATGTCATCAATTAGAAAACCTAATTGATTGAAGGGACACATGAATGCCTACTTTTTATTTTAAAGATACTTTATTAGAAATATATCAAGGGAAAAATGCGACACAGTTATATTTGAAAATGTGACTTTTTTCCATAAGTGACTGTGACTTGCCCTACTATTTTCAAAAAAGGGTGTCTTTTAAATCATAATAAAAGTTCACTTTCATTAGCACAATAAAGTTCTTATAAACTTTAAATCTTAAAAAGGACTGATTTAAAAGATTTTTACTTTTATTTTTTAGTACGTACATATGCATACGTCTGAATGTGGTTTGTACATTTGGGCATATATTTTCATTTTTAAAGGATTTATGTATTTATTTGTGTGTATGCGTGTGTGCCCATGTGTGTGCACACACATGCATGCAGTATACATGAAGAAGGGCCTCTAGTCAGCTTGTAAACATGACTCTGACAGGCTTTGCCTTTCTTTCTTATTCCCTGCCTTGCTAAAACTGTTAGATTTCACTCTTCTTTTTTTTTTTTTTTTTCGGGGCTGGGGACCGAACCCAGGGCCTTGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCTAGATTGCACTCTTAATGCTAGTCACCAAGGTCTGTTTCCTTATATGGCTTCTTCCTCCCCCTTGAAACTGATTACCAAGTTCCACCTATCAAATGTTGAAGTCCAGCAATCAAATGCCCTCATTGACTCACCTAATTAACATGCCCAATTAAAATTAATCCCCTCATCCTAACATGGGGCTTTTCCTCTTTACCCTTATAACTGCCATCTTCCTATAGGTCATGCGTGTCTCCTCTGTCCAGAGGCAGACCTTTGTCCTCTGGAACAAATACCCCTGCTTGCTCTCCCTTGTTCCCTTCCCTCATCCTCTGTCTCCTGTCCCTGCCTCTCATTCCCTGCCTGTTGCCTGTCTAGGACTAATAAGTCCCATTTGTGCTGAGAACTGGGTCTTCAGGTGTCCGGGGCGGGTGCTTTCCTATGCATGCAGTCTCTGTGGCGCCCAGAAGAGGGTGTCAGGTCCTCTGGAGTGAAGTTCTGGAAGATTGTGAGTCTGACGGATGCTGGAAACTGAACTGTGTCCTCTGAGCCAGCAGCAAGTGCTGCTGACTAACTGCTGAACCGTCTCCAGCCCCATCCACCATGGTGTTTGTTTGTTTGATTTAATAATTTTTTATTTTTTGAGAATTTCATATAAAGTATTCTGGTCATTTAAATGATTACTTCTTCTGATACTTTTAATAGCTGATATCAGAGTTTGGGATGTGGCATCTCGAAGCAACGTTTAATTTGTTTTATCAAATTTGAGCTCATAATAATAATTAAAAAAAAAAACCAAAGATATTTAGAATGCACATCTGCAGGGACTCTGGGCTAACACTTTCTGTTCTTCCCTGTGAATGCTTTCCCATCATTGTCTGCAAGCACATTTAGTTTTTATATAACTGCATTTATAACACAGATACCTAAATGGTTTCTTTTTCTTCCACAAAGAGTAAGTATGTTATGGCCTTGAATGAGCAGAGCTAGAATGAGAAGATGGCAGATCAGGGAGCAGAATATATCCCCACTCAAACCTGCTCTCCAATCCCCAATCCCAGTGGTGGTGCTGGGACACACATACCACCGAAGGCATAGCCATTTAAAGTGTGGCACCCTGGGACAGGAAAACCAAGGAGTTGTAGGAATGCTTTCCTAGAGAATAAATAAGCATGTCCCATGCCTCCAGTGAATGCAGACCCTAAACTTCAGTCTTTTGTTTGTGTTGGGCTCTAAGTGACCCCTCTGTGCCAAGAGGCAGGCTTGTTGTGCCGAGGCCTACACACCTATCCAGACAGGCAAGCCCTTGCTCAGTGTGCCTGCCTTTCCAGAAGACCATGTTCATGTTTTCTTGATAATTAGACAAGAGTGTAAGCAGTCAGTGTAAAACATTCAGGAACAAACTCGTGTGTCTGCTTTTCCCATGCTGTAATTCATGCAGAGCCAAGTCTACATTGCATTGTAATCTGTTTGAGTCACTTTACTTTCTAGAGATTTCCTTCCATTCCTTCCTTTACTGTTCCCATTGCCCAAATGCCTGCCTGTCATTTACTCCCATGAACCCTGGCCTTCTCGCTGGGCTCCCTGTTGTAGCCATGCAGTAGAATTGAGTGGAATGGCTAACTTGGGGGTCTGAGGAAGATTAGAGCAGACAGCTAGGTATCAAAGATAACCATCATTCAGTGTCCGGTCATTGCTGTCTTCTAACAGAGGCCCTGGCACAGCAGGTCTTTGAGTTTCCACATCAGCTGCAAAAGTGGGTTTTTATGTGTAGGTCATTCCTGTGTGTTCTCGATAGAGTGCCTTCAATTTGACATGCTCAGTATCAAGTCTAGACCTTTCCCACCCTGCTCACCTCATTCTACTCAGCAGGGGGTGCCTCTGGAGGTCAGACCTCAGTGTTATGCCTTTATTTTCGGGCCACATGTGATTTCTGCAAAATAGGAATCATTCTTCTTTGTGGGTTTCTCATCCACTCTTCTTCTTATTCCTCTTCCTCTACCCATTTTATTTTCAAATCCTTTTCATTTTAATCTCGCCTAGAATGCAATGGTTTAACTTCCTGAAGTTACTAAAATTGAAAAACATCAGGACAGGAACCTGTGATGCTTTGATCAACCTACATTCATTGACTGAGTGCTGTACTGGCCAGGTTGTACCCAACCTGCCATGTTAGTGATATCGTGGTAACAGCAGGCCCGGACACACATACACTCACTTTCCCAAGTGCAGGATATCACAGTTGAGAAAGTCATTAAGATGATTTGGAAGCAAGTGCTGAGAGAATTATCTAGGGAAGGCGTTTTCCAGTCACGGAGTAGCTAATCTAAAGTGAAATCTGACAGATGTTCATTTTCAAGCTGGAATTCTTCAAAACAGAAATAATAACCACCAAGTATAAGCAATGTTTCTGTTACTCAGAATAGGTTGTTAATAAATATTTGGTTTTCTGATATTTCACACACACACACACACACACACACACACACACACACACACACACCGCTCTAGCTAAAACAGTAAAATATATTCTTCTATTGGTTCCTTTGTGAGGAACTTGTACTGAAGTCCAGGCAGTTGCCTAAAGGGGAAATTTCATAAATCTTTCTTGATGTTTATTATCTCCCCCTCCCATTCTTGCACAGTTCCTATGGCATCTGCCTTCTGAGTGGATCTTGAATCTTATTTCTGTGGCTTTCACTGTGTACCATCTTACCATCACCTCCAACTTGACCTGTGATGCCAGATCTTCAGTAGTCTCTGCATTTCCTTTTGTGCCCTCTTCCAACTGTCTTCCATGTTCAAATGACCATTAAAAACATGGAACCTGGGGTTGGGGATTTGGCTCAGTGGTAGAGCGCTTACCTAGGAAGCACAAGGTCCTGGGTTCGGTCCCCAGCCCCGGAAAAAAAAAAAAAAAACATGGAACCTGGCACAAGCCTATAGTCTTAGCATTTAGGATCAGAGGCATGCAGATCTCTGAGTTTGAAACCAACCAGGTCTACATAGAAAACTCTAGGCCAGTCAAGGCATTATGTATAATGAGACCCTGTCTTAAAAAAGAAAAATCAAAAATATATGAGAAGTGGGGCCAGTGAGAGGGCCCCGTGGGTTAAAATTCTTGATATGGAGCTTGACGGCCTAAATTCGAGTCCTGGAGCCTACTTGGTGGAAGGATAGAACCGACTCCCACAAGCTGTCTTCTGAACACCACACGAATGCCTCCATACGTACACCATGCATACACATACACATGTATGCACACATTAAATAAGCAAATGTAAAATAATTTTTGAAAAACAGGAAAACATAAAGCCTCAACAGCTTCCTGTTGCACTGAGACTAAAAGTCGTGTCCACTTGTAACGTGCACAGCCTCTCTGACCGAAGCCTGCCTTTCCTTCAGATCATCTCCTGCTTTCCTTAACTTTTTCTGAGTTCCAGCCTCTTCAAGCCCTTTAAACTAACCAAGTTGTTTTGTATCTCAGGGTCATCCACCTCTTCTCTTTATCTAACTCCTATACATTATTAGATCGTGTATTGATTTCTTCAAGGAGGTCTTTCCTGAGTCTGTAGCTTGTGTCCTTTGTCCCTGTTACACACTGTCATTTCACCTCACACTTTTTTTCATGACACTTTGTATGGTTGTGCTGCAAACCTACTAATTTCTGAGGAGTTTGGGGGAAAAAGGGAATTTAGACATGTTTAGACTATATAGCCTTGGCTGGTCTGGAACACATTATGTAGATCAGGTTAGCTTCAAACTCACAGAGATATGTTGCCTCTGCCTCCTGTGTGTTGAAATTAAAGATGTGCACCAACCCATCCCAGCCTGTGCTTTTCTTTTTCTTTTTCTTTTTTTTTTCCGGAGCTGGGGACCGAACCCAGGGCCTTGCACTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCCAGCCTGTGCTTTTATTTAATGTCTTTCTACCTCTTTCTGATCTGTGGGTGCCTGTAAGTTCTCTAGAGCATGTGTTTCCCTCCTTGTATATCTCTATGTAACACCTAGAATATATTCAGTTTCGGATAAACCTTTTTTGGATGAAGAAGGGGATGAACTAAGCTCCACATTCTTAGACCTTTCTTAGTGGTGCAATACCTTAGACAGGGCTGGGCCATGTCAGAGGCTTCCTGAAGTCTCAAACAGCTCTCATAGAGAAATAGTGGACGCCCACTTTCTTTTATCTGGCCCTAATTAATTGTCCCTTTGGCTGATGCTGATTATACTTGCGACTCACTGTTTCCTCCCTGCTTTTCTCGTAG
Seq C2 exon
ACGGAAAAGGCGTAACTTCAGTAAACAGGCTACAGAAATCTTGAATGAATATTTTTACTCACACCTCAGCAACCCCTACCCCAGTGAAGAAGCCAAAGAGGAGCTGGCCAAGAAATGCAGCATCACAGTATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022162:ENSRNOT00000029600:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.234 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF037928=PBC=PD(31.0=95.3),PF040917=Sec15=PD(61.0=73.4),PF0004624=Homeobox=PU(0.1=0.0)
A:
NA
C2:
PF0004624=Homeobox=PU(75.0=97.8)
Main Inclusion Isoform:
NA
Other Inclusion 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]