RnoINT0107846 @ rn6
Intron Retention
Gene
ENSRNOG00000022162 | Pbx3
Description
PBX homeobox 3 [Source:RGD Symbol;Acc:1307198]
Coordinates
chr3:13240999-13245502:-
Coord C1 exon
chr3:13245413-13245502
Coord A exon
chr3:13242538-13245412
Coord C2 exon
chr3:13240999-13242537
Length
2875 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
AACTGTGCCTCTCCTTTCAGGCT
3' ss Score
10.89
Exon sequences
Seq C1 exon
GTGGATACCCTCCGTCATGTTATCAATCAGACGGGAGGCTACAGTGACGGCCTTGGAGCAAACTCACTGTACAGTCCGCATAACTTAAAC
Seq A exon
GTGAGTACCCTGGGAGGGGAGGAGAGCTGTGGGAACCGTGTCAGGGAAACAGTGACTAATGAACAAGTTAACAGTCCCTGGACTTGGCTTCAGTCTTGTTGGCAGTTGGGGGCGGCAGCATCTTTGCTATGGCTTCGTTTTATGGCCCGCAGTGCTTCCTTACATAGCTGCCCTTTGAAACCCTCACCGAAGCCCAAAGGGGCTGGTGTCCTATCATCAGTGGGGACTTGAGTACCAGCCCATTAAGACTCCATTTCATAGCAACCGTGATGTGTGGAAATGGGTTGTTTATTTTAGAATCAAGCAGCAGGAAAATTTCCCAGCACAGAGCGGGTGAAAGTGATAACCTTGGAGGCCCAGCACATCGGCAACCATGCTAAACAAAGAACCCCGTTCTGGCCTGGGGGGCAAAATGGAACCCCTGAGCTTAATGGCCTCTTTGCTTTAATGATAGAGAAACCTTTGTTACTGATTCACAAGACTTTCCCTTGCTGCCTACCCTGACGTGGATAGGAAATGGCAAACACAGGGCTCTGCAAGGTGTGAGGAATGCCCCGTTCTCGGACACATGGCAGCAGACCCCGAGCAGGATGGAGGCATTTGAGGGCCTTCGTTTGCTGTAAGAGAGCAAATATTAATGACTTAAAGAGTGATTGAGGATGTTCAATTGTAAAGGGGAAAAAAAGACCATTAAATACTCAGATCTTTTACGTTTGAAATGTCAAATCTTTCTTTTTGGGTTTATAAATAACTCACAATAACCCACAACAAGCCGTATAAAAAGCCTTTTAGTTGCATTTCCCCTTTTTCATTTAAGTGTTTTGAAATGCTTCAGAGAATGTGCGATATCCTTATCAACATGATAAAATATGAAGCCATGATTGCCTGCAGCATTTTACAGACGTGAATTCCATCTTCACTGATGAGGCTTGATAAGACGCTGTTGTATAATACAGTGCATAATCTCAAACCACCAGAGTAAGGATTAATTTATTTTGAGAAAAGAGAGAGAGAGAGAGAGAGAGCGAGCGCGAGTGCTCGATGACAACCTCTCCTGCAGCTGCCATGCAGGGGAGAAATATTGTACATTTGTTGTTTATAAATTTGGATAAAGGAGGAATGGTGTTTACTTCAGATGGGATATCTTTAGACTTGGATCTGTGTAAGAAGAGTTCTTCTTTTCCTAAGGAGCTTTTCATACCTGAGGGGAAACAGCTTACCTTTTAGACAGGGGAGGCTATGCCTTAGAGACAGAACACACATGGGCTTGTTACCACCCACCTGGCATGACTGAAGCTTTCAAAAACAGTGCCGTGACTTATTATTTAATCCCATTTCTCCTCCTCTAGCCTGAATTTGATATCTCAAGCTGCAAATTCTTTTTCCACTTAGATTACCAGCTCCTTAGGTTTCCTACCCACCCCTCTCTCCAGCCCCCACCCCGGTCATAGAGCAGTGGTTCTCAATCTGTGGATCTCAGCCATTTGGGGGTCGAACAACCTTTTCACAGAGATCATCAGAAAACATAGATGCTTACATTATGATTCACAACAGTAGCAAGATTACAGTTATGAAGTAGCAATGAAAATAACTTTATCGTTGGGGTCAACATGACATGAAGAACTATATTAAAGGGTCGCAGCATTAGAATCACTATCCTAGAGAGATTGAAGGGACTTTCTATGCAGAACTATGCAGCTAATCAGAAGACAAGGAGTTCTTTAAGGACAGTATGGGCTTGGAATGTGGCTCTGTGGCAGAGAGCTTGCCTAACATGCTCAAGGCCCTGGGTTCCAGACCCAGTTCCAGTAAGCAACAACAATCACATACACACAGCCGTTGTCGGGGAAGAAACAGTTGCCTGCACATAGATCTTCTGTATGTCTCATACACCTTCAGGTGGACTTTCTGGAGAGATTGCAGATGGACAGGAGGGAGGCAGAGAACTGAGGGGCCTTGTGTGGGTGTGGGTGTGGGGCCAGGCAGTATAGAAGCCAAGGCTGGCTGGAGCTGCAGGGACTGGGTGTCAGGAAGCTCACCCTTGCCTTCCTTCCAAAAAGGCCTGCCCTGTCAGTTCTGCTCAGTGTACCCCAGCTCACAAGCCCAGCACCTTCCTCTTCTTGACTGACATAAAAATACGTAGCGACAAGCTGTCTGCCACAGCAGAAATCTGATCAGACATTGATTTCAGCAATTGCCTCTATAGGGTGAGACATGAGGCAAATTTGTTTTTGAGTCCTGTTAGTGCTGGTGCAGGTCCGAGACAGGAAGGGCCAGCCGCAGGTGCAGGCAGCTGCACCGTCCCAACTAGAGGCTCCATTGGCAGATAATTGGAATCCCGATTTGAATAGCGTGCACCCCTCCACGGTTCATACATTTTCATTTTGGAGGGATTCCTGTTTGGAGGGAAATGATGGCCTTCATTTTCCAAGGGTTACACTAGCTGGCTGTCATGTGTATATGGGAACAGCTTCTCTGGGAACAGCTATGAAGCTGGCTGAAGTGTCTGCTTCCTGAAGCTCAAGGTTGCACTAAGGCATCTTGTTGAGCCTCTGCACTGGACCTTCTGAGAGGTGGCTTTTGAATGCCACCAGATCAGCAGATCAGAATAGCAGCAGATCAGAGGCCAGCCTGGGACTAGCTGAAGTCATCTTCACAAAGCTGATTTATCACTTGGTCCTTACTTGATAGAATGGGTTGTTTCACATGCATTTAATCCCACTTTAACACATCTTCCAACTCCTGCCAGAGTGGGTTCAGAAAATACATTTTGCTAATGCGCCTTTGCTCTCCTGTTGTCGCTCTGGGTGTTCTAAATTGGGGAGTGGAATTACTATGTAGATGTGCACCCACTGAACTGTGCCTCTCCTTTCAG
Seq C2 exon
GCTAATGGAGGCTGGCAGGACGCAACAACTCCATCTTCTGTGACTTCTCCTACGGAAGGCCCGGGCAGCGTGCACTCGGATACCTCTAACTAATCCTGGCCTCTCCCAGCTGTCATGCCTTGACAAGCGCATTCGGAGCAATAGGAGGAGGAGGGAAGCGTTTTGTAACCCACCACCTACAGCTTTACTGTAAACCCTGTCTTCTTAGAGAACTCGGGAAACCTGTTTTTTAAGGAATCATAACCATTTGTATTTAAACTTAAGACACACGTTTAAAGGAAAGCACTTTATCCGATTAGGCCGAGACGTAACATTGTTGACAGTTCTTAACTGTCTCATCCTAATTTATTATTACATTTTACAGTAATGGTTCCACAGTTGCCAGTTCCTTGGCCTTAAGGGTAAGAAGTACCATCTATGCTAGACCCCAATTATAGAGCAGGCAAGGTTCACCCTGCCTACGCTGAGCCCTGGCGGATTTCCATGCAGGCTCTCATCGTTCTCACGTCACGGATGGGCTTGGAGGGAAGGCGATGTCTGCCTGTCTTCTTAAGGAAGGCATTTCAGAACTTCCCTCGCCATGTTTGTGTTGCCATCTCTTATGTTGTAATTAGGTCAAAGACTGGTGGCCTCCTTTCTCCCTCTGAAGTACCAGAGCCCGGAGTCTGCGCTAATGAGACCATGGATCCAGATTGCCCTGAGATGAAGATCTTGCTGCTACAGAGGTGAAAACAAGACCTGTCTGGGGTTTGACCGTGTGCGCTGGGTGCTGCACAGACTTGTCAAGGTGTGCTCTTCCTCTGGGCAGCCTGGAAAGGCCCTGCTCTCTGGAGTGCTGTATATAGTGTAGCAAAAGAGTATTTATACATCCCACCAATCAAAACACAGCTTTATTACCTCATGCGAACTCATACAAACCAATAGAATCCCAACATGTTCTGTAGCTTAGAGCGCTCACTTACTACCTCTGAACAATACTCACGCTGTAGTTCGTCTCTTTCTTATCTTTTTGCATCTTGTAATTAACTCTTTGTTTCCCTTCACAAAATGTAATGTACATTGTAATCTTTTAAAAGAAAACTCAGGGTTGCATTTGCAACCCTTAAAAAGCCCAGATCGGCAACATTGGGTCTGACTCCTAACACGGACCATCCCAGCTGTTGTAAATACTGAGACGCGTGTTGAATGTTCTTCATCTTGTTACTAATCCATATGAAGAAAAAGGAAAAAAGAAAAAAAAAAAGGCGGGTTCTTGTGATGCGTTCAGATTCAGTACTCAGCACTGTACATTTCACCCTGTGTGGCGGGCCCTCTCCTCCTCTTTTTGTATTGTATGCGATTCTGAAACTGACTGGGTCGTGACAATAATTCGTGGCGGTGATTCTGATGTATTAAAAGCGTTCCGTGTTCCTTTCTACTGGCTCACACCCTGGATTGAAAAGTCTTCCTTGTGGTAGTTATATGTAGTTTCAAACATGAATAAACTTTGCTTTCCTGATTAAACCTAGATGCCATGTGTGTCTCTGCTCCTTGAGCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022162:ENSRNOT00000029600:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.933 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]