MmuINT0125893 @ mm10
Intron Retention
Gene
ENSMUSG00000029913 | Prdm5
Description
PR domain containing 5 [Source:MGI Symbol;Acc:MGI:1918029]
Coordinates
chr6:65859357-65862994:+
Coord C1 exon
chr6:65859357-65859478
Coord A exon
chr6:65859479-65862914
Coord C2 exon
chr6:65862915-65862994
Length
3436 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
GTCTTTCATCCCTGTCCTAGGTG
3' ss Score
10.17
Exon sequences
Seq C1 exon
TTTTGAGCAGCACCGGAAGGCTTGCCGAGGGGAGGCCAGGTTTGTGTGCAAAGCCGACAGCTGCGGGAAGAGGCTGAAAAGCAAGGATGCCCTGCGAAGGCACCAGGAAAATGTCCACACCG
Seq A exon
GTGAGGAGACACTGCACAGTCCTTCCAAACTCGCCCCGTTCCCTAGGCCATGGGATCTGCTTCGAATTCTCTTTTGTGAGGAGGGGGCTGGCTTCCGTTGTGCGCCACACAGACACACATCTTACCCGTTTCCTAGTTGATTTCAGCAGCATTTATCATTTTCCCCATGTCTGAATTAATCATTACTGTAAACCAGGCTCACACTTAACTGTTCTTGCCTCTCAGGTATACTTTTCAATCATTTCACTGTTTTAGTCTATAAACTTGATATTTCACACACTGTTGAAATTGATCATTTGTAGGTATCCTTTGAAACTAGGAAGTGATGTACTTCTGCCTTCATATTTTTACAAGAATGTTCAGTGCCTTAAGTGCTTACATTTCTTCTGTACTGGAGAAAATTCCTAATTATCTTTTGCCTTGGAGTTGAAAATATTTGAAATTTGAGCAGATCATTTCCTTAAGCCCTTGTAATCCCTAGCTAAAGAATAAAGCAAATAAAAGATTTGCTTGTCACCTAGGATTTTTTTCCTTAATTCTTTCTTGCCTACCAATAAATATATTCTGGGTTGTGGTACCTTTTGCTCTGTGGGGCCTTTTCTCTTCTTTGCTGTCTGTTTGGTTAGAGAGTGTGAGACCTAAAGAAACTCTCCTGTCCTTCTGCACATGTCTTTTCTCATGAGTTTGCTTTTACTCTCCGCTTCTGGGAAGTGAACAGAAATGTGTCTTTGCATAGATAGGCAGGACACTCTTTTCTTCCGTCTTGGTTCATTCTCACAATTAGGTGAAGAGAGTGACTGATACCTGGCATCAGGACCTCTGTGGCCTGAAAATAACTGACTTCAGTAACACAGTGAGAGGTTACTTACCATGAGTGTGACTGCAGGCCTCCCTTCCTCACTGCCTGAGCCTGCACACTGTGAGCCATCCACAGTGCTCTGGGGGCACAAGGTGAAGCTTTTAAGCTAACCTTCAGGGGGTGCCAATCATCAAGACTTCCCAGCATTGTTTTGTGGCTTTCTTTGTGAAGAACATATGGCTGGTATATGGAAAATGACTTCCCCTGCTGAATTTAAAATATACTGGTGCCTTTCATATGATGGCAGAAGCAGGCATAACTTTTTGATAGATTTGCTTTCGTAGGTTTTTATTTTTTTTTAAATGCTGTTTTGGCTAAAATGCTGTTCTTAATTTTCTCCTTCTTTGTCTGCAACGTATTTTAATCAAACTTTTATGTCAGTTTTAAAGTCAACTTTGCTGAACTAAGTAAAAAGCCAGATGGATGCTACAACTCTGGAAACTTTTCCGTCCGCATCACTAGGCATATGGTCCTCCTGCTGTGCTTATAGTGTAGTTTTTGAGTCTTCTGGTAATTGGCCTTGGGTTGCTTACTGTTGCAGCTCTGGGGCATTCATGGTGATTTTGCAGGAAACAAGTCATACATGAAGAGTTTGTTTCATCATCATTATCCCATGTTGCAGGTTGGGATAAGATGTGAACGTTGCTGTATTTTAGCAAAGGTCTCTGTACACACCTCTCAGTTGGTTTGGCACGTGGTATCATTTTCTAATCCTTAGCCTGCTTATACTTCTTTTTTTTCTCCTTAAAGTAGGGATGATGGGGAGAATACTTCCTGTTAGAGCCAGGAGAGCACCACTAAGGTATGGCTGAGGACTCTCTGTATAGAACACAAGGTGTTTAAGGAGCTAGGAAACCAAGTTCCTTTTGTATTGATTGATGAGGAAGCATGTCCTGTTAGATGATATGACCAGTAGCAGGTAAAAGAAGGGAAGCTGAATATTTAAACTCAGGTCAGACATTTTTATGTAGATACAATAGGGGATGATGGATAGGTTTGTAGGTGAGTAGAGTTGTATGGCTTCCTTGACCGTTGCTTGCTTCTGTAACTGTTAGTATAATATTTTTGCTGTTGTTTGATTTGTTTTTCTGATCCTGATGATTTAACCCAGGGCCTCAAACCACCCCTGAACTTTATCAGAGTACTCCCAACTCCTGAGAGTTAAACACCATGCAAACCTGAGTATAGGAAGCCAAAATTCTATGGATTCTGTGGCTGCTAAGAAAAAGGTTGTGTTTATGAGAAATAACATTTCATAAGCTCTTTCTATATTGCTCTGCGTAAATCTAGTTTTCCAATTGTAAGATGAAAGAGATGTGAAGAAGAGATGGTAGGGATGGGAGATTGGTACTGAAGCAGAATCAGCAGTGAAATGAATGGTTGGAGATGTCAACTTCTTTCTCTCTTCTCCCATCCTTATGGGAAAACCAGGGGCTGGTCTCAACAGAGAACTATGCCAATCACAAATAATTGGAGTTAGAAAAATGGAATGTTGTTTTTCTCGGTGGTCTTTCTAGAGTTCATGTATAGACTGATGAACAAGTCCATGCAAGATGATGTCCATTTTGTTGTGTGAAGATGTTTCTCTTTTGAATCCCTAGTGTCACCACCAAACATATTTTCATGGCTGTGTAGTCGGTAGAGTGCTTTAAACAATTAAATGTACCTGCTCTTGCTGTGACTATCTTAGGATCTTGAAAACCAGAATGAAAATTCCTACCTTTCTTCTCCTAAATGTTTGTTTCCCTTTTATAAACATAGCTCTGCATCATGATCACACAACACTGCAGTATTACTTCTGCTTGTCAGGGTTTCCTTGTTGTTGAGGTTAGAGCAAGGATGGGCATGGGTTTCACCTAGTTTGGGGGAAGTGATGGGCACAGGGTGCTACATTATGTTAATATTTACTTTAGGAGCTTTCAAATATTTTTTAATTATAAAATATCATTTTGAGGAAATTTGTGCTGGTACAGATAATGCAGTTATGGCATCACATTTTGAAATTATTTTGAGTGTCTAATTACTGTGAAGTTTGAAATATGATATGAGTTTCTATTGTTACTGTAAAAGAAGATGAATTTTAGTTCTGGTTGGGTTTTCTAACAGTGTAGGTTGCCAGTATAATACATTATTGTGGTTGATTTTATGATTTTACATTATACTATGCATTAACAGTTATTTAGTAAGGTATGGGCTCAAATTCTACAGGAATTTAGTTCTGGAGGAATAGTCTGACTAACGATAGCAAGAAATCACTTGATGAAAGGTCAAGGAAATAGGGTAATCAAGTTATGAGTTAACATGGTCATTCTTTTCCCTATAAAAAGAACATTTGATTTACTTAAATTTTGTTCTGACTTTTTGTGGAAACTTTCTCTCTAGAGACTATTTTAACAGATGGAATAGAGAAAAGTTTATTTGATATATGTGGAAACTGATGAGCTGGGAACTCTCAAGTTTGAAAAGAAAGACTTGAATATAACCTCGTAGAATTCTCAATTACTACCATGAAATGGTGTGGAAGGGATCCTGGGTCAACCTCAGTTAATTTGTGATGGTCTTTCATCCCTGTCCTAG
Seq C2 exon
GTGATCCTAAGAGAAAACTCATATGCTCGGTGTGCAATAGAAAATGTACCTCAGTGTCAAGCCTGCAGGAGCACAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029913:ENSMUST00000031976:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.187 A=NA C2=0.012
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=61.9)
A:
NA
C2:
PF128742=zf-met=PU(87.0=74.1),PF144711=DUF4428=PU(38.0=70.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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
- 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