MmuINT0125894 @ mm9
Intron Retention
Gene
ENSMUSG00000029913 | Prdm5
Description
PR domain containing 5 [Source:MGI Symbol;Acc:MGI:1918029]
Coordinates
chr6:65812909-65819259:+
Coord C1 exon
chr6:65812909-65812988
Coord A exon
chr6:65812989-65819174
Coord C2 exon
chr6:65819175-65819259
Length
6186 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CAGTTTAATCTTTTTTTCAGATT
3' ss Score
8.05
Exon sequences
Seq C1 exon
GTGATCCTAAGAGAAAACTCATATGCTCGGTGTGCAATAGAAAATGTACCTCAGTGTCAAGCCTGCAGGAGCACAGGAAG
Seq A exon
GTGGGTGAGAGCCTGTCTGTTGGCTGGAAGGCCTTCTGTCACCATCTGCCGCAGTCACTTGGTGGATGTTATACCAAGACAGGGCTTAGCTAGTGGGGACGACATGTTCCACAGTACAGAAGAGTGAGCTAAGAGTAGTTTGAGTTGTGTTGTTTCATCATTAGCTAACAGATTCTTTAATGCCAGGTGTCATGTCTAGCTGAGTCCCACAGAGCACCCACCACATTTTCAAGATTTTTTTCAGTTGGTGTTTGCTCAGGAAACATACATCAGTGATATGAAAACAGACATTTTTGTGCGGAGAGCTTGCCTTTTTTATTAACATGAGTACATTTGTGGTTCAGTTTGGTACAGAATGAGAGCTAGAAGATGATTTTTAAAAGACTAGAGCTGAGTTGATAACAATGAGACCGATTGGCACTGGGATGTCTCAGGGCTCCTCTTAGCTTATTCTACTCTTGACAGGAAAGTGCATATCGATAGCTTTGTGTATCCCTGTGTCATTGGAGAAATAAATGATCATAATCATAGAAAATGTATTTAACACTTTGTGGTAAGTATGAAAATTACTGTTATCTTTGTATGTAAGTCTAATGTGAAAATTAAGCATCAAGTCTAGCAATTAGTAAATAGTTGATAGAGAATACAGTGGAATCAAAATAAAATTTGGATTTTGTTTGTGTTGTAATAGAGTGCACAAAATTTCCCAATTTTACATGCTAGATATTTAGTATATCTGAGAACATGAAAAAACTTTCAGTAACTTGTTATCTAGAAGAGATATTGCCGATGAGTGTAAAAATTTTATTTTTCTTGTGATTTGTAAAATGCTTTTTACGTATTTGTATGCATGTAGATTTATTACATAGTAATTTGGCAGGACTTAAAGCTGATACCACCTTTTATGTATTAGTCCCAAGTTTATGGATTTAAATTATGACACATGAAATAGCTACTGACATGTGTGAAGCTGTCTCCTGGATATAGAGCGATTTTTATTATCTTTGGGAGAAATAACAATTTGCAAATAAAGGCTGTTCCTTTGCTTTCAGTAGTTCCCCATTTAACATTGGGCTGGATTTCTCCTCTCTGAACAAGGATATTAAATTGATTAGAATTCTCTGCTTATTCTCTTAGTTTTTGTAGTTTCCAGCTGGTGACTTTATGGGGCCTATTGAAGATGTACTATGCGTCTCAGATTTGGGTGTCCTTCTTGGACAGGGGCCAGGATATTCTGCCCAGTAATGTTCAGACTTGTGCATGTGTGCTGAAATTGCAGAACGCCAGTCTAGACACTTACCTTCTAGCTCCAACCCTTAAATTGTGTATATATGTGTGTGTACATGCGTATTCATGTGAGTGCCGAGCACAGATGTGGAGACCAGAAGACAGTCTCCATTGTTGGTCTGAGAGAGACTCTTGTTCTCTGATGCATACACAAGACTGACTCATGAGCTCCTGAGTCATCTCCTTTCTCTGCCTTTTGTGCTGTCATAGGAACTTAGGGGTTGCAGACAAACTGTTATGTGGGTTCTGGGAAATTGAACTTAGAACTTCCCACTTGCACAGAACATGTGTTACCCACTGAGTATCTCAAGGTCCTGTAGCCCCCTTTTTTTCTTCCTTATAAATGCTAGGACTTGGAGAGTAGACTTAGTTTGAGGCAAAAATATTAAGTCTTTTGAAGTTTGTAATTCTAAACACCCTAATTGGAATGCCTATTGAATGGTTATTTCCTGGATCTATTTAATCTTAGATTATGATGTTTAAGATATTTGAACAGAGTATTTTAGCAAACTTAGTCATGGAGTCTTTTTCTGAATAATGCCTTATTTTCCATTTATTTACTAATATAGATACCTTCTCCATTAAACAAAATTAATTTGGTAGTAAAAAAAAAGGTGTAACTGTTGGTGGAATGCAGAAGGAACAGTTGCTCTTTCATGTTGTGAACATTTGCAGAATGTTAAAAAATTCGTAGTGCAAATAGACTTGCATTCTAGAGCAACCCTTCAAAGTCGTTCTCAATACAAAGGAAAGTATCGTAACTCCAACTGTCAATCATTTTAGTTGGTCCGCTCTAACGTCTAGTAGAGTTTAGTTGCAGTATTTCATCTTGACAGCAGATGGTGCTTTATGACAATACTAAATTACAGCATAGTGTGTATAGTCTTTTATATTACAGTATACTACTTTATGTTGTAACAAAGTATCTTATGATTTTTATCTAAAGTTGTTTCATTTCAGACTTAAAGTAGTAAATTATCACCTGAAAACAAGCATGGAAAATTGTAAATTTAACAAAACATGTTTTCTTAACACTAGGCATGATTAAATAATGCCTGTCATTTGTCAGTTAAGTTTTGTTAAAAGTTTTAAAAATATCCATGACCCTGTTTCCTCTATAAGAGAGTTAATTCTAAAAAGCTTTTGTGTGCTGTAAATGACTTATTTCATTAATTCAACCTAAAAAATGTCTCATGTTTCAAAAATACTGAATAAATAAGAGTATCTTTTAATATTTTAACAATTATTTTGTCCATAGATCAATTTTTAACATTTTCTATACCAATAAAATTTGGATATTACAAATAAAGTCTTCATTTCTATATTACACCAAATATTTGTCATTTGCACTAGCTTGTCATCGTTATAAAATTATATATTGCATATTTTTACATGCAGTATTTAAGACTGTAAATCTGCACTTATTAGCTTTAAATACACGTTTCATGTCCCGTGCTTAGTGGCTGAAGCCCCCATAGCTGTTTGATGGGGAGGGGCTGCATGGCCTTCCTAAATGCCGCCTGGGACTTGTGTTCGTAGTTCTCCCACTCGTAGCTCCCCAGTCTCCACACTGAAACTCATCCTGTTCAGAAGTGGACGTTGCTGAATCTCTGCATTGATACACTCCAGAGGCTTGATGTCTGTCAGGGACTGTCTGCTTTATGCCTTTCCAGGTTCTCGCAGTGAGTTCTGACTCACTAAAGAGTAAAGTCTTTAGAGGAGGGCTTTCAAGCTTTGCTCTAGCATGGCATGGCATGGAGTCAGGCCAGCCGGCAGGCCTGGGATCTGTTGGCCTTGCTGCCTCCAGCTTTTCTCTGTCTTTTCACTCTTCTTGCCGTGGCCACTTGGATCCCAAGAAAACCTCATCCTCCACTCATGCACTGTATCAGTCATGCTGATCTTTCCCTCTGTGGCATCTAGTTATTTTTCAGTAACAGAGAAAGTCTTGGCTCTAAGAAGAAGAATTTGCTTGCCTAAGGTTAATTATTGTTCCTTCAACAGAACTAGTTTTGCATCTTAGTCCAATAGTTTGATGCCCTTGCTAATTGGCTGGTGTCTTAGTCAGGGTTTCTATTCCTGCACAAACATCATGACCAAGAAGCAAGTTGGGGAGGAAAGAGTTTATTTGGCTTATACTTCCATACTGCTGTTCATCACCAAAGGAAGTCAGGACTGGAACTCAAGCAGGGCAGGAAGCAGGAGCTGATGCAGAGGCCATGGAGGGATGTTCTGTACTGGCTTGCCTCACCTGTCTTGCTCAGCCTGCTCTCTTATAGAACCCAGCCCAGAGATGGTTCCACCCACAAGGGGCCTTTCCCCCTTGATCACTAATTGAGAAAATGCCTTACAGTTGGATCTCATGGAGGCATTTCCTCAACTGAAGATCCTTTCTCTGTGATAACTCCAGCTGTGTCAAGTTGACACAAAACTAGCCAGTACAATTGACCCCTTGTCAACTTGACACACAAAAACATCACTAGTAAGCCTCAACCATTACAATCTTATTCATCCCCAAGATCTAAATAACTTTAAAAGTCCCACAGACTTTACATATTCTTAAATTTTCAATCTCTTTAAAATATCCATCTCTTTTAAAATCCAAAGTCTTTTTACAATTAAAAGTCTCTTAACTGTGGGCTCCACTAAAACAGTTTCTTCCTTCAAGAGGGAAAATATCAGGGCACAGTCACAAGCAAAAGCAAAAGTCAATCTCCAACCGTCCAATGTCTGGGATCCAACTCAAGATCTTCTGGGCTCCTCCAAGGGCTTGGGTCACTTCTCCAGCCATGCCCTTTGTAGCACACGCATCATCCTCTAGGCTCCAGATGCCTGTACTCCACTGCTGCTGCTACTCTTCGTGGTCATCTCATGGTACTGGCATCTCCAAAACACTGCATGACCCCTTCAGTCCTGGGCCTTCAATTGCAACTGAGGCTGCACCTTCACCAATGGCCTTCCATGGCCTCTCACAGTGCCGAGCCTCAGCTGCTTTGCGTGACCCCTTCATGCCTTCAAAACCAGTACCACCTGGGTGACCCTTACATATTACCAAGTCCCGCTGCAGCAGGAGTACAACCTTGGCCATCTCTGGAACACAGCCTCTTTGTGCTTTCAGAAAACACTTCCCAGAAGATGTCACCTCAATGATGCTGGTCTCTTCTTAGTCACCGCTAATTTCTTAGTTACAGATAACCAGCATCAATAGTCCCAGTAATGCAAAGTTTTTGCTTTGGTAGTTCTGGTATCTTGTTAATCACAGCTGATTCTTCAGCCCCAGCTAACCAGAACTACAGAATCTTCATAATCAAAACAGCAATGGCCCTGAAAAGAGTCTTTAATTTTCCCTCTGAAATTTCACAAACCAGACCTCCATCTTCTACAGTGTTCTCAACATTATCTTACAAGCTCCTACACAACATCCGACAGAGCTCTTAACAACAGATGGATCTTCAAGCCCAAAGTTCCAAAGTCCTTCCACAGTCCTCCCCAAAACATGGTCAGGTTGTCACAGGAATACCCCACTCTGCTGGTACCAATTTGTCTTAGTCAGGGTTTCTATTCCTGCACAAACATCATGACCAAGAAGCAAGTTGGGGAGGAAAGGGTTTATTCGGCTTACACTTCCATGCTGCTGTTCATCACCAAAGGAAGTCAGGACTGAAACTCAAGCAGGTCAGAAAGCAGGAACTGATGCAGAGGCCATGGAGGGATGTTCTGTACTGGCTTGCCTCACCTGTCTTGCTCAGCCTGCTCTCTTATAGAACCCAAGACTACCAGCCCAGAGATGGTTCCACCCACAAGGGGCCTTTTCCCCTTGATCACTAATTGAGAAAATGCCTTACAGTTGGATCTCATGGAGGCATTTCCTCAACTGAAGATCCTTTCTCTGTGATAACTCCAGCTGTGTCAAGTTGACACAAAACTAGCCAGTACAGCTGGCCAGCATTTTTCAAGGCAGACTTCATGCCATCTTCCTCTTACAACTGAATACCTTCCACATCATGATAAACTGAGATTCTATTTTCCCATACTAAGTACTTTATGGTTTGAGATAGAAAGAACTAATATAGTACCTGATTATAACATTTTTATTAACTTGTGTGTTAAAGCTGTACTCTGAATAGATTTTATATAAATAAATAAAAAACATTTTATATAAATATATAATAAAATATATTTTATTCATCTATATTTAAACTATACAACATGCAATGAGATATAATTGTGTTAGAATAGTTACAATAGTGAACTGATTTCACATTCACATCTCACAATATTCATCCAATCCCTACCCTATGTCAGAGATCCTGTAATCTGTTCATTCATTCAACCAAGATTTCCTGACCACACCATTGTTAATGTAATTGGCCATATTGCTTATGTTTAAGATTAGATCTTCAGACTCAGTCATTGTATGTATAGGCTATTTTATATATTCCATCATTTTTATTGTGGTCCTCCTGTCCTGTGAAGCTTCATTGTGAACTTAGTGCATTCAGAACAGAGCTGTACTGACCTTGCTTGCTCTGCAGTTGATAGTTTACATTTGAAGCGTTAATGCCTATTGTAAAAGGAAAATTATATCTCAGGTAGCATATGGCCCACAATAAATTTTATGTATAACGCAAGTTAATATGTTAGCTGCGAAGGTTTTTTATTTTTTTTTAACAGTTCGTATATTTACTACATACAAATAAGGCAGGAATACTGCATGCTTTCCTGTGAGGATTTTCTGATGATACATTAGCTATATAGTATGTCATGGCATTTCCAATGTACATGAAGGAAACTTGGCCCAATACTAGCAACTGTCCACATGTTTATATTTTTTGCTTCATCTGTGTATAATTCATTATTTTCCAACACTTGGTTTAACTGTCAGTTTAATCTTTTTTTCAG
Seq C2 exon
ATTCATGAGATATTTGATTGTCAAGAATGTATGAAAAAGTTTATTTCTGCTAATCAGCTGAAGCGTCACATGATTACCCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029913-Prdm5:NM_027547:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF128742=zf-met=PU(87.0=74.1),PF144711=DUF4428=PU(38.0=70.4)
A:
NA
C2:
PF128742=zf-met=PD(4.3=3.4),PF144711=DUF4428=FE(56.0=100),PF134651=zf-H2C2_2=PU(38.5=34.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
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]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: