MmuINT0127126 @ mm10
Intron Retention
Gene
ENSMUSG00000023007 | Prpf40b
Description
pre-mRNA processing factor 40B [Source:MGI Symbol;Acc:MGI:1925583]
Coordinates
chr15:99295271-99303363:+
Coord C1 exon
chr15:99295271-99295428
Coord A exon
chr15:99295429-99303282
Coord C2 exon
chr15:99303283-99303363
Length
7854 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGT
5' ss Score
7.92
3' ss Seq
ACTTTTCTCTCCCTCAACAGTCG
3' ss Score
10.46
Exon sequences
Seq C1 exon
ATGGTAACGTCCCCGCGCGGGGGTGGAGAGGCCCGGGGCTGTCTCACAGCGCCCCCTGCGGCCCGGGCTCGAGCCGGGGAGGCGGGAGGGCCGCCGGGGCACCCGGGACCCTGAGGGAGGGCGAGGGGACCGAGGGGTGAGGAAAAGAAGCCCTGTAG
Seq A exon
GTAGGTGGGGGCGGGGAGTGAGGGTAGAAGGGGCGGGGAGGCCATTATGGTGCATGGCGGGGGGCGGGGGGGCGGGTGCGACCGGGGGCTGAGGGGACGGAGAGCCTAGGCGCTGTGTGAGGAGGAGGAAGGGATGAAGTGAACGGTGGGTCTGTGGAGAAAGGTCGGGGGCGAAGGGAGGGCAGGCGATGGAAACCAGTTGCCAATCCTAGGCTATTTGGCGTGGCCCGTGCCCCTCCCCCAGACCCAGGCTTGTGCCTTTTGGAAGCCCCAGGTGCCCCTTTGGACCTTAGGGGACACCCTTCCTTACCCATCCGTTCTCAAAACCTGTCTCCCGAGGTTAGGAGGGACTTCTGAGGAAAGAGATGCTCCTGGTTTCCACCTCAGAACCGGAGTAGTCCAAGAAACGGAGGAGCAGAGGCCCCTGGGTCCCAACCCTGGCTCTGCCTTCAGACAGACTGTGGTAACTCTGTGTGACCTTGGGCAAGTCACTACCTTTCTCTGGGCCTTGAATTTCCCATTGACTTTTAAAAAGGAAAATGGGCAGTATGATAAACGGACTCTCCATCCGTTGCAGAAGGGGGCGGGATTTGAGGAGGGAATTCAGGCGAAGGGGTTCTAGGATGCGTCAAGCAGGAGGATGTTGGAGTGGAGACCTTCAGCTTGACTGGGGAAAATTTCTCGGGATTTACGGATAAGAGATTTAAAGCTTGCAAGGCTGGGTCCTGGCAGGCCTGGGCCTTGGGAATCCCGTTGGAGAAATGGGAGAACTCTATAAATAGAGGAAGTTGAACCCTGGAAGTTCAAAAACGATGAGAACCAGAAGTAACAACATTCTGTTTCTTCGGGAGAGTGAAGAGGTGATGGAGGATCAGAAGCAAAATGTTGTATTCTAGAAAGATCTCTAGGCTCTTTGTGGGGAGCAGAAGAAATGCTAGGGCTTACACACCAGAGTAGAGGCTAGGAAGTAGGTGGGGGAGGGGCTGGACCTATTTGGGCTCTGCAGGTCAGTGGAGACAACAGGGTGCTAGAGCTCAGCTGTTCTTTGCAGCGCTCTGCATTGAACCTAGGGCCTTGTTAATGCCGGCAAGAACTGTAGTGCTGAACTACTCTGCCAACCCCGTTTCTTTTTGATGATGGCTGCCTCTCTTTGAGAAATATGCCTCTTAGCCTTCATTTTCTTACAGTTCCTTTGGTGAATAAGTCAGTCCAGGCCTACCTAGGATCACCTGGTTGTCTCAGAATCTCAGGATTGGGATTAAAAAAAATGAGGCTAAGAAATGTCATCTGTGCCATCCTTCTTTCTGGGAGGCAGCTTTATGGGGTCGGACTGCTTGGATTCCAAACCTGCCTCCGCCGTTTAATCTCTGAGAACTGTAGCCACGAAGTAACCTGTTAGAACCCCAGCTTCTCCATGAAATGGGGATACTTTCTCAGAAGGTTGTGAGGATTAAATGGACATGTGGTGTGACTCTGGCTCATAATATGCACCCAGCAAACATTACTGTTAGCCGTGATCTCTGTTCTCTTCCCTGTCTCTCTATTTTTGTCTTTTTCCCTGTTCTTCTGAGTGCTCAGTTCTGAGCTACCCCTTAGATCTGAAGGCTGAGAATTGATTACATCTTGTATCAGGATGCTTCCATTGGTCTCCCTGAATATATGATGACTAGATGGCCAATAGTCTCAGTATTGACTCTCCCCTGCCCTACAATGTGTGTTCTGTTCCGGGGAAGACTGACAAATCTGCTTGTCTTTAGCTTTCTTTCTACTGTCCTTTTGCACTGGTCACTTCAGAGTCCACTCAGAAGTGTTACCGTCCCAAAGTTGTATTGGTATTGCAGCAGGTGAGAGGAGCAGAAAAGAAAGGACAGCACAGGGGGAGGGAGGGAAGACTCTAAAAGGTCCATGGTCATTTCCATTCATCCCATCCCTCTGTCTTCCCTGGGTAACTGAGTAAAATGGGCCAGGGTTTGAATTCTGTCCAGAAGTCTCCATACAGTTAGCTTTCTATCATGTAACTTTTCCCATATGAGTATTTGATACCTGCTGCCTTCCACCAAGGTAAAGGATCTCTATTTTACATGTTTCTATTACCGATTATACTCAAGAGAATTTACACAAACAAATGAGTGCAAACAGTATTTTAGGTAGTATCCAAAAATCCACCAAGGTTAGGGATGAGATGGTGTCATCAAAGCACTTCAGGTGGAGGGCCACCCTGTCTAGACAGTTGGGGAGTTTGAGAAAGAGAAAACCTAGGCTGTCGAGATGGCTTAGTGGCTTAAGTGCTTGCTGCAATGGCAGAAGGATTGGAGTTCAGATCCCCAGAACATACAAAATGCTCAGCTCCTTGTAATTCTAGCCTTTAGTGCAGAGACTGGATCACCAGAGTATGACAGCTAGTGAGACTGGCTTTATCAGTGAGCTCCGAGTTTGGTTGGGAGACCTGGCTCTCCCCAAGGAATAGGGTAAAAGATTGATGAAGGATAAAGGATAATTCCTAACATCAGCTTTGGGCCTCTGCATGCTCATGTGCCTCCCATGTCCTCAGACATTATGAAATGGGGAAAGAAAGAAAGCTCACTTCCAAAATGTAGCACACTGGATTGGAAAGGCAGGCACTCTCAGAAGCCCAGTAAACATTCACAGAGGTACAAGCGACTGCCAAGTGGTGTGCTTGGTCCTAAGAGGACAGAGTGTGTGGGTGTGCGGGTGTGGGTGCTCGGGTGTGCGGTAATGTGAAAGTAAAACAGAGTGAACTTTGGATCATCTTGAATAAAATGAGAGAAATCTAACAATTCCTGTACAGAAAGTTAACTAGGAAGCCCTGGCCTCAGGATGGGCCAGATGTGGAACTGCCTGTAGCGAAAGGCTTTGGATGGTAGATGAAGAGAAAAAAGTATTTATTTATTTATTATTATTATTATTTTTTTAGATAGTGTTTCCTCCGTGTAGTCCTGGCTCTCTTGTAACTCACTCTAGAATCTGTGGTCTTGAACTCAGAAATTCACCTGCTTCTGCCTCCCAAGTTCTGGGACTAAAGGTGTATGCCACCATGCCCAATTTACTAATTTATATATTTATTTTGAGATAGGGTCTCCCGCTGTAGCTTTGGCTGTCATGGAACTTGATTCAAGATAGCCTTGAATTTTCGGAGATCTATCTGCCTTTGCCTCCAAACTTAAAGGCATATGCCAAATTAAGAACACCTGACTCTAAGTCGAGGAATTTTATAGGGCAGGCAGTAGGCACCACTGTTTATTCTTAAGATGAGGTTTGAATCTTGATGATTTAGTCACTTTCAGGGAAGGTTGGTATGAAAACACTGCTTTCTGTGGCAGGCACTGTGCTTCTAGGGAGGACAGATGGGATTTAGTTGGCTCATCTGAAGCCAGCTGTGGGACTGACACACCATTTACAATTACTCTGTCTGACCTTTCTCACATGCTAAGAGAGGAGTGCCGATGTGTGAAGTGGCATTCCTTTAAGTCCAGCACTTGGAGATGGAGGCAAGAAGATCAGGAGTTCAGGACCAGTCAGTCCAAGCCACCCAAGCCACTGTCTCAACCAACCTTGGCACATGGCTATAATCCTAGCACTTGGGAGGCTGAGGGAAGAGGGTTGTTTGGTTGTAGGTTTGAGGCTAGAGTTAGAGTGGGGTATAGAGCGAGCGAGTCCTAGCCAGCCTTACTATAAAGTGATAACCTGTCTCATAGAAGGTTTCGGGAACATTTGGGGGATATTCAGAGTCTCCTCCAGCTCTAAATTGTGTTTTCTTTATAAGGAGGCCTTATCAGAGGCCACCGAGTTTGGCAGGACTTGCCAAAACCAAGTCAATGACCTGCCCCACTTTAATTTTTCTATAATGTCTATTACTCATTTGGATGACAGAGCATGTGCTACAGTGCATGTGTGGGGGGAAAACAGGGGAAAGTTGTGAATCAGTTCTGTTTCTGCTGTGTGGGTCCTAGGAGTCAAATGCAGGTCCTCAGATTTGAAGGCAAGTTCCTTAATCCACTCAGTAGCTCATTTACTGCTTCATTTGTGAGGCAGAGTCTCTGCAGCCCAGACTGACCTGGAACTTACTACACAGCCCACAGTGACCCAAGCTCCTCATACTCCTATCTCCATCTTCCCAGGGCTAGGATTGCAGTGTTGAGCCGCTGTGCTGAGTTACCTCTGCCCTTAAGACTTTACATTTTAGTGGAGTTGCTCTAAATTCGTTAAATCCAAGATGTAAGTGAGGATCCATGTTTTTGTTTGTTTTTCTAGAAATACTTTTTCTAAATAAATTATTTATTATATATACAATATTCTGTCTGCATTCCAGAAGAGGGCATCAGATTCCAGTATAGATGTTTGTGAGCTACCAAGTAGTTGCTGGGAATTGAGCTCAGGACCTCTGGAAGAAAAGCCAGTGCTCTTAACCTCTGAGCAATCTCTTCAGCCTGTGAATCCATGTTTAATAGAGTATATGTTTTAATGCCATGAGATGGTATGTTTGGAATTATACTAGTGACTGTAAACTTGTGATGGGTGACTCCTAGAAGGAAGGTGTGTGGTGTTGAACATATAAAGGAGACTCTGGCTAGTGCAGTGGGTTGCTGAAGGTTTTCATTGGAAATATTTGTTGGTTGTGAAGTGTGTATAGGACATAGGAGAGGTGCCTGATGCACAGTTGAATGCCTGAGCTGGGAGAAGTGAGTGTGGCTGGAGCACAGAGATGGGTATGGAAGAGACCGGCAAGGTCAGTGGCCTCAGAGACCTGGGTAGAGTCTTGGTGTTCACTCAGAACAGTGGGAAACCAATGGAGAATTCTATGCAGGTGCTTATGGGTCTGATGTGTATTTTGGAGGGCATTGTGGGTACAGATAGAAGTGGATATGAGGATAACAGTTTGGGAGGCCACATTGTAGATCAGATGGGAAAAGTGGTTTGGGCAAGAAGTGTGAGAAGAAATGGAAAGAGCACCTAGATGGAAGAACTCTTTTGGAGGTTAAACTGAGAGCTGGGTGACATATCAAGAAGGCTCTAGAGAGTGTCTTCAACAGATGACTACATAACATGGTGGTGCTGGGCCTGATAAGACTGAAGGATGATTACGGCGTAGGTTTAAGAGGCTGGATAAATGGTTCAGTGGTTAAGAGCACTGGCTGCTTCTTCCAGAGGACCCTGGTTTGATTCCCAGCACCCACGTGGCAGCTTACATATATCTGTAACTCCATTTTTAGGGCTTCTGACACCTTCACATGTAGGCAAAACACCAATGCACATAACATAATAATGTGTGTATACACACACACATTAAAGGCTCTTAAAGCAGCTTAAGGTGAAATAGTAGAACATAAAATTGGTATCTCCTATGCAAGTCATTTCTGACATTCCATACAGATAAACTCTCCAGAGGATAGGAACAGTACACTTAGTTGAAGGTAGACAATAGAGAATTCTAATAGCTTGGCACATAGCTACTTAGGACAAGGAAAAAGATATTTCTAGAGATAAAGGTTACAAAGCAGTTTTAACTGGTCAGGCCTCCTCAGGAGCGGGGTAACTGAGAACAATTGTGAGGCAGCTCCTGTCCGTCCAAACTTCCACCTCTTACTAGAGCTCTTGTGCTGGTCCTCAGCTTCTGCTTAGGGAGAAAAACAGCCCTTTAGCCACATCCTCACCTTTTACAGAGTGTTTGAGCTGGGCTCAGAGGTTAAGAGCACTGACTGATCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAATTACATGGTGGCTCACAGCTATCTGTAATGGGATCCAGTGCCCTCGTGTGTCTGAAGAAGTGTACTCATACCAAAAATAAATAATTTAAGAAAAAAAAATGTGTTTGAGCCAGGCGTGGGCACACCTCGAATCCCAGCCCCTGGGGGGCAGAGGCAGGAGGATCTCTTGAGTTCTAAGCTAATATAGTCTACAGAATAAGTTTCAGGGTAGCCAGGGCTACATAGTGGCACCCTGTCTCAAAAACAAAATCAAACAATATAAGACTGTCTGTCTGTTTGTGTCTACGTCTATGCCCAGAGGCCAGATGAAGTCAACCAGCATTTTATTCATCCCTCACTGCCAAATTTACTAGACATAGGGCCTCTCATTGAACCTGGAGGTAGGCTGGCAGACAGCAAGCCCTAATGATCGCCTTCATAGCACTAGTGTTACAACCATGCACAGTTGTGTGTGTGTGTGTCTGACTGTCTCTGTGTATGTGTGTTTGTATATATTATGCTGGCATCCAAACTCAGGTACTCATGCAGCAAGTGCTCTTACCCACTGAGGCATCTCTTCAGCCACCAAAAGACATTATATATATATTTTTTCCATGTATTTAAGTTTGTCTGCATGTACATCTGTGCATCATGCCTGTGCCTGGTACTCATGGAGGCCTACTGGAGTGTGTCAGATCCCTGGAACTGGGGGTATCCACACATGTGAGCCATCATGTGGGTGCTGGGAAATTGAACCCAGATCCTTGCTCCTGGAAGCAGCTGTCTTGAGTGCTGAGGGATGTCTCCTCCTGCCCCACCCCAGGTATTTTTGAACAGGTAATAAAACCATATAGTTGGCATATTCATAAGGCATAAAATGACATACTGTGGAAAGTCTCTTCCTTCTGTGCCAGGAAGGATCTAGCCTTTGCTGCTGTTGGAAGATGGGTGGTGTTGAGCACTGGGTGGGAGAGCCGCTCTCAAACTCTAGTCCATAAAGTGACAAGAGAGTGTCTTTTGTATCTTATACAATAAAGCTTCGCCCCACCTTGCCTCCCTCAGCTTAGCAGCACATCTTTAGATGTTGGCATCAATCCATATCTTAGTAATGAGTTTCCTCATTCTTATGACTGTGTTCCATTTTATGTTTTCGTCTCATTAGTCTTTACTGATGGATATTTCAGCTTATTCTTATTTCTGTTTATAAATATGTTAAAATAAAGATTTTTCACATCTATTATTTTATACATATATATACAATGATTTGTACATCTATCATTCTGTATATAAATATACAGAAAGAAAGAAAATGACATTTTAGAATTTGAAAGTTTTATAAAGAGATTTGCTTCCTTTGTTTTAAATTCATTCAGTATTTATTGAGTACCTATTATGTGCCAGACCCTGAGGCAGGTACCAGGAATCCAGCTTTCGGCAAGTCATGTGATCCCAGCCTCTGTGGAATGGCATCACTCTCTAGTAAGGCAAAATATCAGAGGAGAAATTGAAGAAAGCTACTTTAAATAGTATCGTGTGGTCAGCCATCAGGGGCAAGATAGAAACACGTGGACTATGCAAGCCTGTGTCCACGTTTAGGGTTTGTAAAGGAAAGGCACCATCAGGTGGGGACGATGGCTTAGGAGTAGACATGGAGAATGTGGATGAGTGAACATGAGTCTAGTTAGGGAAGAAGCTGGTTATAAAGAGACCAGTGCTGTAAAGGAACAGCAGTTTTGGATCAAGTCTTCAACCTAGTAAATTGAACAAGGAAAGATGTCAATCCCTACCTGGCTTGAGAGAGGGGCAAGGAAGCGGGTTGAAGTCATGGCAAGAACCAGATGCCTGTTGCAGCGCCTTCTGTGCCTGTGTTGTGGCATTGGCAAAATGGGAACTCCCAAAGTAAAAATGATATGAAGGACTCCATCATCTGGCTTTCTGGGCTAGCACTAGAGTGTAGAGCTTAGAAGGGCTCAGGCCTGGGATGGGCAGGAAATAAATGGGGCTTGGAAACTCCCTCCTCAACTTGTGTTTCTCTTTCATCTTCACCCCCTCTGCTTCCCTTCTGCAAAAGCCCATCTCTGTGCCCGTCCTGGGTCCTATGACTTTTCTCTCCCTCAACAG
Seq C2 exon
TCGGTTCCCGATTCTGGTCCCCGGCCCCCAGCAGCGCCTGCCCCCTTCCCACCGGGGCCCCCCATGATGCCACCACCCTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023007:ENSMUST00000145482:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.932
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types