RnoINT0118347 @ rn6
Intron Retention
Gene
ENSRNOG00000052539 | Prpf40b
Description
pre-mRNA processing factor 40 homolog B [Source:RGD Symbol;Acc:1565411]
Coordinates
chr7:140973972-140979197:+
Coord C1 exon
chr7:140973972-140974063
Coord A exon
chr7:140974064-140979080
Coord C2 exon
chr7:140979081-140979197
Length
5017 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACACACTGCTGTGCCCACAGGAC
3' ss Score
8.83
Exon sequences
Seq C1 exon
GCTCGACTCCTCTGGACTTGTTCAAGTTCTATGTGGAGGAGTTGAAGGCTCGGTTCCACGATGAGAAGAAAATCATAAAGGATATTCTTAAG
Seq A exon
GTGAGGAGACCTAGGTTATGTATGGACAGATGGGTATAAGTCATATTCCCTAGACCAGGACTCCCCAAGTCATGTTTTTCAGAACATGGCAGCTTGCACTGGGGATACAAGTAGACACGTTTTCTAGCCAGATGTAGTGCTGCATGTCAGAATCCCCAGCCCTTGAGAAACTGAGGCAGGAGGATCGCCATAAGTTCAAAGCCAGTGTGAGCAAGAAAAGTACCGATCAGGTTGAAGCCCTATGTCAAAAAAGAATAAAATCCAAAGCAACAGATCATTTTTTGCTCTTACATGAGAAGCAGTAGCCAGGGATAAGGGTTACTACAGAGACAGGAATCAGAAGTTAATGTTGACCCTTCCTCAGGATGAGTAGATGGAAGGGGTGGGATGCTGTAGACATACAGGTACTGTAGGAGCAAAGGCACAGCTGGCCTGAGGAGTAAGCACAGCACTTGTAAACTCACTCCCCACACTGCACTCCTTTCCACCTGTAAGGTGTTCTGAAGAATCTGGAATGCGTGGCTAATGCTTTACAATCTGGAGGTTTCACATAAAAACCTGTTTTGTTTTGGTTTTTGAGACAGGGTCTTATGTATCCCAGGCTGGCCTTGAACTCCTGATCCTTCTTTCACTTCCCACACGCTGGGATGATAGGTGTGCACCACTATGCCTGGCTTCACGTAAATTCTGGATCTTCAGTGTCTCTTGCCAGTTTGGATGATGTCAGCACTGGGCTCGTTCTGCAAGGCATGCCATGGACACTGGCTGAGATGACACTGCCCTCTTAGAGGAAGAGGGTGAGGTGTTCTTTCCCTCACTACACCTTACTGCCTTAGTGCTGGCAAGTGTCAGCTGCCATTCACTAGCCCATGTGCCCTGTCATCCTCTCTACTGGAGAAATAGTTATTCATATTTGTCAAACAAAGTTTAAGTGAAAGGAGCGTTGTGTTCCAAAAGGAAAAAAATGTCTTTCTTTATGGAAGTAAATACTATTGTAATACATAATTCTATTAGTATCCTAATAGTAACTAATATTCTGATAGTAAACACTATTCTACTAAGTACTATATGTATTAAGATACCATATAGTACAGTGACTAAAGCAGGACCTAGGATAAGAGTCCACATTAAGGACTTTTCTAAGCATCAGTTGCTTTGTTTCAGAAATGGTGAGTTCCACCAAGGAACCCTCAATTACCAAAGATAGCAACTCTGTCCTAAGTTGAGGGACAAGGTACTGTTAGGCAGATTGATTGCTTTACAAAGCCATGAATGTTGTACTGTAATATAGTCACCTGTTCAGTATGGACGTAAACCAATCACAGTGGCTCACACCTTGAATGCCAGTGCTTGACGACGAGGAGCAGGTGAGTTGCAGGTCAGTCTGGGCTGCACAGCAGATCCTATCTAAAAACCTGAATAAATGCCCCTAAGAGTTCCAAGTTTCAAAGTCACTGTTAAGTGAGATGCATCTTCTTGTCCTGGGTTTTCTCTGATTTCTCCGGAACCACATGCCCTCTAGAGCTTTACAAAGGCTTTGGAGTGAGCTGCACTCTAGCTCACCCTTGTCTCTGGACTGGGTCTCAGTGCTCTTTAATACAAAGGTTGGAGAAGCACACCATGCCAGAGACTGGGTTAGAGGGATGCAGGAGGGGGAGGACCAGTCAGGTAGCTATTGTGGAATCTAGGTGGCAGATGAGAAGCGCAAGATGCCAGGAGTGTTGGGGTGTGGGGAGGGGGAGTGCCAGTCTGGAGGTGGCTCTTCTTGCCCTAGTTTCTTTCTTTCTTTCTTTCTTTCTTTTTTTTAAAAAAAAAAAGATTTATTTAGGGGTTGGGGATTTAGCTCAGTGGTACAGTGCTTGCCTAGCAAGTGCAAGGCCCTGGGTTCGGTCCCCAGCTCCAAAAAAAAAAAAAAAAAAAGATTTATATAAGTACACTGTAGCTGTCTTCAGACACACCAGGAAGAGGGCATCGATTCCCCATTACAGGAGAGTGGTTGTAGCCCCATGTGGTTGCTGGCGAATTGAACTCAGGACCTCTGGAAGAGGCGTCAGTGCTCTATAACCACTGTATGCATCATTTTCTAATTAAAAAAGCTTGTATCTCTTTGGTGATTTAGGATTACCATATATAAGATTTTACTAAAAAATGAGGCTGGCATGGTGGGCAGATGGCTTTTTAATCCCATCACTTGAGGAGGCAGGGGCAGTGTGCGAACTGAGTTAAAGGCCCGCCTGGGCTAGAGTGAGCTCTAAGACAGCCAGGAGGGCTATTACAGAGAAACTCTGTCTTAGGAGTTATTAATTTTAGGGGGGTTGGGGATATTTAGCTCAGTGGTAGAGCGCTTGCCTGGGTAATTCACAAAGGCCCGGGGTTTCGCGCTCCTCGGCGCCAAAAAAAAAAAAGTTATTCATTTTATGTATATGGGGTAGTATCTGCCATGGGAAGCCATTGTGTTGCCTGGGAATTGAACTCAGACCTCTGGAGGAGCAGTTTATGCTCTTTGTCTTAAAAAGGGTGGAGGGTTGGGGATTTTAGCTCAGTGGGTAGAGGCCGCGTCTAGCAACCACAAGGCGGCCTTGGGCCCTGGGTTCGGTCCCCCAGCTCCGGGAGAAAGAAAAAAAGTGTAAAAAGGTGGGAAGTGGGCTGGTGAGATGGCTGAGTAGGTGAAGAGGTTCGCCCAGCAAACCTGAGGACCTTAGTTTGGTGCTACAGGAACCACACGGGTAGGAGGGATCAACTTCACATGTGCGCGTATGGGCACCCACTACATACATACTATCATACATACATACATACACCAATACACGTTACATACATACATACAACGAAACATAAATTGTTTAGGCTTTGGGGTAAACCTGCTAATATAAAATTCCACACTGTTATTGGAGAAGTGAATGGCAGTACTATTGTTAAGTGTTAAAGATTAAGCAGCAAGGGCTGAACAAAAGAACTGGCTACAGAAGACCAGCATTCCATTTGGGAAGTGACTCTTCAAGCAGCTGGGCTGGAAGGAACAAAGCAAATGAGTACAGATGCCTCTCCTGAGGGTAGCTGTTAGCAGAGTAACCAATGGCCTGACGGTTTTGTCCCCACCAAAGCAGTTATTTTGGCTTTCTATCCTTGATTTGGGGCTTCTGGCGGTCCGCGGAGGCCAGATGATGCTTAGGAGTTCCTGTGGCCATCCAGTCACATGAAACTGTAGGGGAGGTCCTTCATATTCTAGGCGAACGAGGGGTCTCTGAACTTGGAGCAGATAGAAGTCTGGAGATGTGGGCTAAAGGATTAATGATGGGCAGGAGAGCTGCATGACAAGATTAGCCAGGTTGGCATGGGTTGGAAACTGCTAGGGAAGATGTAGATCGGATAAGGGTTTTGTTTTTTTTGTTTTTGTTTTTGTTTTTTTAAGTTAGTGTCAAGGCAGACGGGAGAGATGGCTCAATGCTTAGGAACACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTACCAGCAACCACATGCTGGCTCACAACCATCTGTAATGAGATCTGATGCCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTTATATATAATAAATTAAAAAAAAAAATGTGTCAGGGCAATTCTCAGGAACACATGCTCACACGAGGGAAGTGACCAAACCAAAAAAAGACCCTGAGAGGAGAATACTGCATATATTTCACAATAATTTGTTCACTGGCCCAAAAACCTCTCTACCAAATTTATCTCGAACTTAGGAACCTCATTTCCTCTGTAAACTGGGGATAATTCATATAATTCTAAATAACATTTAGAATGTTTTAACGTCAAGTGTCTTGCTTATAACAATCTCTTAATGTTTACTTCTTTTCCTTGTGCTGTCTAAGGAATTAAAACTGAGGAAAAGAAGCAGTTAGCTAGCTTGAGGAGCTAAAAGCAGGATAGAGGGATAATCTAAGTGAAGTGAGCTGTGTGCTCCTGGGAGGGGAGAGAAGAGGATGTAGTGCAAGCCTTCCCCCAGAGACCTATTCTAGGGAGAGCAGGGCTGTCACACAAGCATAAGGACCTGTGCTGAAGTCCTCAGCACCTACAGAAAGTTTAGGCATGCATGCAGCCCCAGCCTGGAGGCAGGGCAGAGACAGTTCTCGTCTGATAGTGTAACCACAATGGAGAGACTCAAGTCTCAAGGCAGGGAGACAGAGAGCAGTATACCCAAAGTCCTCTGGCTGTGGCCTCACTCATCAGAAAGGATGTGTTCAGGAAGGGCTGAGCCTTGACTGAGAAAGGATTCCTGGGGAAAAGCAGTGTAGGACTGCAGGAAGCCAGCTGTGTGGAAGGGCAGGAAAGCTGGCCTGTAACCCAGCATTCCACTTACCTCCTACATTAGCTTCACCATGTGACTTTACTCGCTTGCACCTTGCCTTCACAAGCATATAGAGGCTGGCCGTGTACTTAAGACAATGAACATTTTTTAATATTGCTGGAGAGCTAATCACTTGATGGCCAACATCGCTTTCAGGACCTATGCAATCAGGGTGGGTGTAGTGCCTGAAAGCAGATTTGGGATTTAGAGCCAGGATAGGATAAAACAAGTGGTTTCATTTGTCTTGTCTGCATAAAATTAGATGGCTGACCTAGTATGACAGGATTAGTGGAGAAATGTGTGAAGCATTCAGTACAAGAGGCAAAGGGTACAGACCAGATGTTAAGCATGCATGGCAACTTCCATGAGCAGCAGGAAGGCCCAGCTGTGGCCAGAGGAACCAAGATGTAATTGTAAAAACTCAGTCATCTATCAAGACGCAAGATACTTCCTGACTCTTTTGGCTCCATGTGCATCCACACAGGTCGGAATGGGCCTGTCAGATGAAGACTTAGCATGGTTTCTAAGGTGTGTCACACAGTCTTATGGATCCTTTTTGAGGGCAGAGGCTTGAACACCTTGCAGCCTGATTCTTTTTGCCCATTGGCCTTGGGTCTTGGGCCTGTGGTGCCCCTGGCCTTCACACACTGCTGTGCCCACAG
Seq C2 exon
GACCGGGGCTTCTGTGTGGAGGTGAACACAGCCTTTGAGGACTTCGCCCACGTCATAAGCTTTGACAAGAGGGCTGCTGCGCTGGACGCAGGCAACATCAAGCTGACCTTCAACAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052539:ENSRNOT00000091306:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0184614=FF=PD(17.9=32.3)
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]