RnoINT0107829 @ rn6
Intron Retention
Gene
ENSRNOG00000004693 | Pbx1
Description
PBX homeobox 1 [Source:RGD Symbol;Acc:1308213]
Coordinates
chr13:86424477-86432379:-
Coord C1 exon
chr13:86432220-86432379
Coord A exon
chr13:86424567-86432219
Coord C2 exon
chr13:86424477-86424566
Length
7653 bp
Sequences
Splice sites
5' ss Seq
CGGGTCAGT
5' ss Score
6.55
3' ss Seq
GTTGTTGTTCCTCTGTCTAGGTG
3' ss Score
9.68
Exon sequences
Seq C1 exon
GTATCAAACTGGTTTGGAAATAAGCGAATCCGGTACAAGAAGAACATAGGTAAATTTCAAGAGGAAGCCAATATTTATGCTGCCAAAACGGCTGTCACTGCCACCAATGTGTCAGCCCATGGAAGCCAAGCTAACTCGCCCTCCACTCCCAACTCAGCGG
Seq A exon
GTCAGTTTCCTCTTTGATTTGGGGGGGATTATTCTCCATTTGTATATTTGTTTTTCCCTACTTTGAGACTTTGTTTGAATGCTTATGGGTTCTGATTCGTTGATCTATACTGCAATTATGATTTGCTGTCAGTGACAATTCGGGTTTTTTTCCTTGTCATATTCAAAGGACAAAGCTTTTAAGATGGGGCTGTCTGCAAGTTTGCATTGTAATGCATATGTTTAATTTATAATGGAGGTCCACTGTGGATTTAATGAGACCTCTAAAATCACAGATAAAATTGAACACTTTTAGGCAGTTCCATGGGGTTCTCCTATGATGTTTTCATCCTCGTTTATCTTGCTGTCCCCATCATCAACATGTCCAGGTCATGTGTTGGCATGGGACCTGGGCAAGGATATTCATTCTTCTGCGAAGGTCTCATTGGCAAATTCCAATCTGCAGGGCCAGGCTACAATATTTCCTAGATGCTGATTAGAGATATTATTCTGTATTGGTTTCTTTTATTGGTTTTCCTTATGTAAATTGCCAGGAAAAATTATAAGCTGTTAAACCAAATATTTTGAATTCTAGTGTTCATATTGTAACCTCAACCGTGTGCTCTGGGTCTAAATTTTATTTTTGTGAGCGTGCATCATACCACTAAATTCAGACTTTAGGCTGCCATAGAAGTTCATTTTTAGAACTGCCCTGCGCTGTCACTTCTGAACTTCCAGGGTGCCACAGTAAGTCAGTACTATATGAAATATTACCTCTGTGACGGTATGCTGCAGAAGACATGTTGATATTTCTCCTGGAGGGGAGAAGGGGAAAACAAACGTTTCCTTATTAAATATGTTTTGTGTAAGAAGTCATCCTTCCCTATAACGGACAAGATGCATTTATTTGGGATGTGGAGTGCACTTCTAAGTCTGCCGATACCAATAATATACTAGCAAATCCAAACATATTGACTCATAACATGGTTGCGAATCTGATTTCTAGGAGTATGTGTGGTGACATCAACCTCATGGTCTGGTTGTCTACTAAGGAGCTTCTTCATGCCATATGCTGCCTTTGTAACTGGATATCTGTGGGGCACCACACACTTTTCTTCCGTGAGCTTCTCCACACATTAATTGGTTATCTTCGGGGTCTCCAAGTCCCTGGGCTATGCCACCATGACCTTCTTTTGTTTAATTAGAATCAGGCATGAGGAGAGCCCTTGGCTTTTCAAACATTGGCATCACAAGACTCTTTAATTTGATCCAATTTATTTTCCTCAGCTGTTAAGGTCAGGCTGCCCTGAAGAACGCTTTTGAAAATTCTGTTGGTTTTGTTGTTGTTGTTGTTGTTGGCCGTTGTTGCTCTTCCTCGATGTGGTATGATTGATAAAAGATCCAAGTGAAACAGGTCCAATAACCACAGTTTCCTCCTTCCCTATCTGCTTGATGGTTGAAGATTTCAAACCCAGCTTCACAAGGTGATCTGCGGTGCTCGGCAGACATTCTCGCTTATCTCTTTGGAAGAAGTATAATTCTGTCAATATTAGCAAAAATGCACTCAACAGTCCTGCAGAGGTTATCATAATGCAAAACAGATATCAAAATGACTTTTTTTCCCTGTCCCTGCTATATCTGCATCACAGATGGCTTCCCATGATTTATGACTAGTCCTTAGAAAGGCCCTGTGGGCTCCCTTCATTACTAAATCCATAACTATTTTTCTTTCCTAAAGCACTTAAAAAGAGAAAAGTAAGCATTTTAACCCCCACTCTGTGTTTAAGAATTATGTTGGCTCTTACGGAATGTCAGTCTGATTACAGTTTTCTAAGGAATTTTCTGGTGGCTTAAACTTCATATGACTATTCTGAGCACAAAGTACATTATTATGGAAAACTCAAGCTAAGCCTTCCAGTTGTGCCTAAGTTATTGGAAATAATTTGCCAAGGAACCCTTTGTAATGGTCCCTTTCTAATACAAAGAGCAAAGAAAACACCATTGTAGATGTGCAACAGCACGGAATTTTAAAGATAAATGTCTTAACTGGAAAAGTTATAAATGGGCTTCTCTGGGTTTTCTTCGGCTTTTAACAGCCTAAATCACGGCACAGATTGGAGGATAAGCGCTCGAACTTTTACATAGAGTGTTTATTCCATTGTGCGCCATCTCGAAAGGAATTTCAAAGGAGAAATGGTAATGGAGATTGTCAATAAAAGGTTAATCTATGAAAAGGTATTTGGGCAGATTTTGAAGTCCAGGATTCTGGCACCCAGGACAGTTTTATCTTCTTGGTACGGAAATAGAAATTCTCCTGGGATCTTTGCTTACTCGACACGTTCATTTCTACCGCAGGAAAGGCAATACAGCAATAAACCCTCTTCCCTCCCCTGGATTGTGTGCAGGGAATAGCACTCGGGTGGTTAGCAACCCACACCTAAGCAGCCCTGTTTGTTCAGTAGACTTTGCCCCCTTTTCCATAGCCTCACCTAGGACTAGGTGCTAGGGATGTCCAAGTATCGTGAGACTTTCAGTGTGATTTATTGTGTCTTCCAGCAGAGGTGGACAAACCCGATGCAATAATGAGGAAGGATGAAAGCAATGAAGTTGAGGGCGTGGGAAATGAGAGAACCTGCATGACAAAATTGTATAAACCTTTGGCTAGAGCTCACTGGGGAGACCCCAAATAATGAGCTCTCAATTTCTCAAGTTTAAAAGAAAAAGGTTATAGAAGCATGAATTGAGGACTCAAACGAGGCAGGTGCTTACTTGGAAGCAAGAGTGAAACATGATTAGGTTCACATCTACTAAAATCTGTCCTCCTCTGTACCCTCCTCCCTGCCTCGAGATGACATGGAAGTCTGGCTGAATTAGCCAGTTACCTCACCTATGGGGAACTTGGGTTTTTTAGACTCCAGAAATTAAAGCAATATTTGCCAGGTAGTTCCCTCACAAAACCTGTATACCCAGTGAGAATCCGTGAGCTCATACTTTCAAACACTTTGAGTTTCTTAAGGCAAGCACATACCATATCTGTGTGGTGAGTTATTAGTTCTCAATGAGAGGTGAGTATTCACCTCAGCAGACATTCAGGAGTATCTGGAGATGGTTTTCATTGTTGTCAGTGTCCGTGGTGTGGCTGGAGATGGAGATCCACTTAAGCATCCCACCAGGCATGAGATGCTCCTTACAGCCAAGAATTATCCAGCCAAAAGCATCAATAGTGCCAAGACTGGGAAGCCATGCTTCCATTTAGATATTATTACGTTTTATTGTTAAGTTAGTTGAATTTTATTGCATATTTGGGTCTTGTTTGTTTGTTCTGTTTCGTTTTTCGCGAGAAGTTTAGACTCCTAAAGATCATTTGAAATAAAAGGACTGACTATCTTCAGGAACTCGCCTTATGAAAATGGATGTTAACACATTTCCAAGTCACAGTCTTTGCCCAAGGAAATGCATTAGATTCCCGGGTGACCCATTACTTCTTCTCAGTCTAATTGAGTGCAGATGTCACTTTGTACACACCCCAAGTGCCACACTGGGTGGCACTGGCCTTCATTCCTTAGCCAAATCCAGATCCTTTCAACTGCCAAGCACATCTTGAAGTATGCCTCCAAGTGACTGCTGATTACCCTACAGCACCCTGCAGATAAAGTGACTGGGTGGTCTCGGCAAACCTACTAGTACGCAGCTGTTCTTTGGGGATTCCACAGCACTTTCAAGAAAGTGCATTCACTTTCTGTCTGGGAACCATGCAGTGCTCAGGAGGCTCTCCATTCAGTGATCCATTCTTTCCACCCTTCAATGCTGGGCAAAGAACGGCCCCCCAACACACACACACATACCTTGATGCCTGTGTGGACTTTATTGTGGTACTAGGAGCACCTGTTCACTTCCGTCTACTCCATCACTGCCTCTAGATTCTCAGAAGCCACGACATGGCTGCACAGAGACCATGAAATGCTGAAACAGCACAGCCAAGAGCACAAGGGACTATTTCTGCAATTACTGCTCTGATACAAATGCATTTATACACACAGTGCATTTGTATGCGCATATTTATCCCTACGCATATTACATAGCCAGACATATTTACAATTTATCTATGCACATATATTTTTTTAAATCATCCGTGTCAATTGCAGTATATATCTTGTAGATGGCACACTCCATGTCTGCATGCTTCTGTGGGTGCCATGCTTCTTGGCATGAGGGTAGCCCTTTTGGGGATTTCTCTCATGGCATGGTTTAAATAGTAATGACCAATTGACCCTCAGCCAGGCACACAGCATCTGTGACTAGTACCTGGTGTCTAAGAATGGGTGAGAAATAAAATACCTAGGTTTCAGACTCAGCACTTCGGGGCCAAGGAACATAGGAAGTCTGATGACGTGAATACAGCCATTGTGTAGGTTCTGGTTCTGATGTGCGCTGAACAAGACGTGATATTGCATTGGCTTTATTGTTTAGGCTTTGTGTCTGTGACTACAAACGCGATCTGAAGGGGCTACAACTCACGTGTCAAAGTCTGGGTTGGCTACACAAGCATGAGAGTTGGAGCTGCAATAAACGTTGCTTCTTCCATAGTTGGGAGGGTTGGTTTCAAAAATAGAGTGCCGTGGTAATGGAGGGAAGTTACAGGCCAAAGTCTCCATCCCACTGCCTGCATATAAACTGACCATGACGAGATCCTAGTCCTGTTTTTGCTAAGATTGAGTGTGTCTAATTCCTTCAAGAGAAATTATATAGAAAAGTACAGGCCAGACAAGATGTAGTCCGTTGGTTGATATTTCAGTCCCCTCTCCACCCATAAAGACAGCACTTTCCTTGCCTGGAAAAGCAGGAATGGGCAGCGAGCTGGAGGCAACAGCAGTTTATGCAGAAATATAGTTACAGAGTTTCTTGTGTGAGGATGCAAACTCCCCGGAACACAGGAAGATACAGATAGTTCTTAACTTGGGGTTGTTGCCAAGATTACAAACACCTGGTTCCTCTAAATGACTCTTGCAGTTGACATGTGATGACACAGTAGACAGTTGTATATCAAGTGCCATGGCAGGGTAGAGAACACACTGCCTATTAAGTGGCTGCTCTGTGGGGGAAAAGAAAAGGTCTTCTCTTCTTGACTGCGGGTAGACAGCTCTCTTGGGGAGCTCAGATCCCTGTCTTGAGAGAAGAGACAGAAAGCATCAGACAGGAGGTCTGACTCATCGCTGGGTGACTCCCCATTGGTGGTGGCTGTCAGAAGAATCTCAGGGCAAGAAAGAGCACAGGGTTAGAAGTCACAGAGTGCAACTGACCTGGGTCCCTGAGGTCTCTCCTTTATCAGGCTAACGTCATGTTTTTAACCAAACCTTGCACGCTGAGCTTTCCTTCCTATGCGCTGAGCTGCACGATGATTTTAGAGCTCTGGTTAGCTTCGGAAGCCCTGGGATTCAGGGTAAGCTTGAGCTAGGTTCATCCCATGGGAGCCTGTGGATGGATCTAAGGCCAGCCAGATGGAACTTCTATCTCTGGTGAAAGCTCATGCTACCTCTCCTTCTGGAGGCCGATTTTTAAAAAAATTCCTAGACGCATTTCATGCATGCTTGAAAATGTTAGCCCAGTGTTCTGCTTTATCTTTCTGTGCTCCAGCAACTGGTAGAAAGGCTAGGCCATTCTCACATAATCTCGCAGTCTTGGCGATTTCCTGGGCTCTTGCCACAGAGCAACGAAGTTTACCGTATTTCTAGGAATGGAGAGTATCTATCCACCCCAGGAGACACTGCCTCAATGCACTCTCCTCCTGTGTGCTGCTTCCACTCACAAGATGGATTCAGCAAAGCATATTTGGAATCTAGAAAAAGTACCCAGATGCTCTAATGTGGTGGCAGAAATATCATTGGCCAGCCAATATTGTTGACCACACTCTCCATCCTTTCGGCCTCATGGCCAACCCTAGACAATTAGAGTCATGAAAGTAGATGGCACTAGACTACAGCTTCCCCTTTTCAACTTAAAATCACTAGCCGAAAGCAGTCTTCACGACAACTCGGAATGAGGGGTCTCTTTATGTAAGAGCAACAGCGTGCACCCTCTCGCTTGCTCTGTTCTTCATGCTACTAACCAGGCTCTGCAGACACTGTTTTCGTCTTACATTTGATTTGGGGGATTGCTTTGCATGCCATTCTCCTCTTGGCTGTTGGTTGCGGGGTTGATCCTTTTCCTTTCTGTGATTCAGGTGCCTCACTCTTTCCTTTCCAGGTTCTTCCAGTTCTTTTAACATGTCAAACTCTGGAGATTTGTTCATGAGCGTGCAGTCACTCAATGGGGATTCTTACCAAGGGGCCCAGGTTGGAGCCAACGTGCAATCACAGGTAGGGACCCAGCCAATATGCCGCCAGGTGAATTCAGTAGAGTGGAAGAACCTTCAGTTGTCTCAGCCTCCTGCTCCTGTCTGGACCCAGAGAAGGATAAAGAAAGGAAGGGAAAGGCAGACAGGCGGTAGTCAAACCAAGTCAGAATAAAACGAAACAGAACAAAGACAACCATTATCATTGGGTATGGTGCCCATGCTTTGGCTCTGGCTTGTCAATCACAGTAGGAAGGTAGGAAAGGAACGAATAAAGAGTGAGGTGAAAGAGGCCTGCGAGGCGGGTGGAACTGGTGTCTCTGTTATTCATCAAAGGAAAAGGAGTTTCAGCCTGTTATCTCTTCCAAGTCTCCCTCTCGTCTGTTGATTTCCCATCTTCAGGATTCGCTCACATAAAGAAGTCATCCAAGGTCAGGCAGATGCGTTAGTATCTCCTGCTTTCACCTTAAGCTTTAAAATCACCAAAGTCAGCTTGACTAAACTCGTATACTTAGTCACCCTTGAGGTCAGTGGGTTCGAGTTTCTGATGATAAGACCATATATGGAACCAAAAATCAAGTCATGTGCCAAACCTCCGTGCTTCTTAGTGTAACCATTTACCTTCAAGACAGATACCTTGGGAAGCCATCCTGCTCTCTCAGCATGAAGCGTGATGTGAGAGGTTGAAGTCATATGCTCTGGGTCACAATGACTTGGGAAGATAGGAGCCACATCTACCTATCTGACACATGGAACAGAAAATAGTACATGCCTAGAATAGACAGCTGGCTGGTGACTCAGCCCCTTGCACAGGAAGCGCTGCCTAGAAACAAATTTGAGGTGACGCAGGCAGACTTTGGTCATGTGACTAAATGACTTACCATCATTGAAATACTGGTTTTAAAAATAAATAAATAAAACTGGGTCTTTATCCCAGTTTCCTCTCTCTGTGACGTGGCTGTCCCAAGTCTAGGAAAAAAAAACCTTGACTCAAGTTGCATAGGATAAAAAGCGAGGGAAGGAGAAGCACCTGTCCTCTCCCTCCATTCCCTCTAGCACCATGGTCCCTGACCCCTCACACAGTGTTGTGCAATCTATCTCAGTTTGGGGAACCCAGGTTTCTTTTACTGTTTTTACTGAACTCAGAAGTAACAATGTTTTGGGCGTCGGGGGGGAGTCCCAGCCTCCTCNTTCTGGACTCCCCCCTCCCAGGAAGAGCATCTCCAAAATGATTTGCTTTACTGTGTAGCATGACCCATTGGTAGCCTGTGAGGAGATGATGTGCCGCATCCTTTCCTTCCTCTCTCTGACTAATTGCCTTTCTGTTGTTGTTCCTCTGTCTAG
Seq C2 exon
GTGGATACCCTTCGCCATGTTATCAGCCAGACAGGAGGATACAGTGACGGACTCGCAGCCAGTCAGATGTACAGTCCGCAGGGCATCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004693:ENSRNOT00000027996:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.773
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(21.7=24.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
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]