MmuINT0125914 @ mm9
Intron Retention
Gene
ENSMUSG00000051977 | Prdm9
Description
PR domain containing 9 [Source:MGI Symbol;Acc:MGI:2384854]
Coordinates
chr17:15680043-15690509:-
Coord C1 exon
chr17:15690316-15690509
Coord A exon
chr17:15682325-15690315
Coord C2 exon
chr17:15680043-15682324
Length
7991 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
AAAACTTTATCTTTCCACAGAAC
3' ss Score
8.96
Exon sequences
Seq C1 exon
GTATGTGAACTGTGCCCGGGATGATGAAGAGCAGAACCTGGTAGCCTTTCAATATCACAGGAAAATCTTCTATCGAACCTGCCGGGTTATCAGACCAGGTTGTGAGCTTCTGGTCTGGTATGGGGATGAGTACGGCCAGGAACTGGGCATTAAGTGGGGAAGCAAGATGAAGAAAGGATTCACAGCAGGAAGAG
Seq A exon
GTGGGCACTATTATGATTCCTTAAAAAAGAAAGAGAAGAGGGAATTCTCCTTGAGAATTTTCATTTTCTAACTCCTTTTAAAAAATGATTTATGGTAAATAAAAATGTTTAAATTCATTAGGGAAAAATGAAAACAAGCATTTCTATAAGAGTACAATGTCAAGTGCCAAAGCTTACCATATTAACTGCATAAAAATAAGCATCGAGAGCATTCAAAAATCATCCTACTAATAGGGAAAGGAAGAAAAATGAGAGCGAGGGTGAAGCAAGAAAATGGACCATGATTAGGAACCCTCAAAGGCAATTTTAGAGATAGGATTTCGCACCAAGGAACAGGCACAATACTGGCCAGGAATGAGATGCTGGATGCAACTGAAAGCTACTCAGAAGTGGGATAAATGAAAAACAAATCAAAACCCTAGATTGCTTACTCCAGATCCTACCGCCCTGCCCCATCCCACTCCAGATTCAGAATGAGTCAAACACAGGTAAGAGCTATTGTGGTGGCTATTAGTGGTTGTCAGCTTAGCTGTGTCTGGGACAAACTACAATCCAGAAATGCAGGGCATACATGTGAGTTTTTTCTGCTTGGTTTGAAGTGGGTGAATTCACTTCTAATGCAGAAGTTTGAGTTAGAAAGACACAAACCTTTGATCCAGATCTTAAGACTGGAAGACACAGGCCTTTAATTGGGATGTTGAGGTAGGAAGACATGTGATATGCCTTGAATCCAAATCTTGTAGAGGGAAGACATATCTTTAATGTACATGATATATATATATATATATATTTTTTTTTTTTTTGCTGGAAGTCTATGTAAGGACATAGAAGAAGGATGCTTTTGCTCTTTGCTTGCTTGCTCTCACCTTGCTAGAACATCCATTCCCTCATTGGCATTGGAGTCAACTTCTTTGGGATTCTAGCATATACAGAAGACCAGCTGAGACACCCAGGCTTGTGGGGACTGAACAACTACTAGATTCTTGAAATTTCCATTCCCAGCCAGCCATTGTTAGATTAGCTGGATTGCAGCCTATAAGTCATTCCAATAAATTTATATATGCACATAAATTATATATATGTATATTTACATATGTATACATATATATGTATGCATCTATCTATACACACAAATATATATAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAGAGAAAGAGAGAGAAATTAATTTATTCTATAAGTTCTGTGACTCTAGAGTAACCTGACTACTAATACAACTATAGACTTTTAGAACTGTTTACCCTGTCAGGAAAATATTTTGTTCACAGAATAGACCTGTTGACATGAAAAGTAGTATGTCAAAGGAGAACTTATGGAGGCTATATTTTCAAAATGATCAACAGAATTTCACACTTCACAGCCTCCTTGTGGGCAATTCTGACATGGGGCAATTCTACCCAGTGGTTGTCAAGCAGCCCTGTTCTGAGACAATAAAACTGGTGGTTCTCTCAGTACCTCTTTCTACAAATCTTAATGCTACAAACACTTCTGGGAAGATACACTGAAAAATCCTCTTCCTTAAAACCATTTAAAAGCAGAGATTCTGTCCATTCACAATGAGACCATGTAGGACATACAGGGTGAGTTGCCAGTATGTGCACCCTTGGGTGGTGCCCTCAATACTCTGCCTCAACCATCTCAGCATCAAGAGAAAGCCCTTCTCAGTTACATCTCTATTTCGTGTGATGGTCTTTATGTAGGATGTGGTAAAAATGTGGATCAAGCAATCTCCAACTTTTGCCTACCCACCAACATAAAAACTTTATAAAAATATTAAAACTGGGCGAATTCAAGGCCAATCCAGTTAAATTAGCAAGGCTGGCTCAAAATAAATTCAAGGTTATGAGTGTAGCTCAGTTGCCTGGCATGTGCAAGACCCCCACCTCTCACTCACAAAGAAAAAAAGAATCAAAACTGGGCTAGAGATATAGTTCTGGGGTAGATAACTGCCTAGCATGCACAAGACCCTGACTTTCATAACCAGAATCACAAACTAAAAAGAAGACAAGAGAAAAAGAGGGAAAGAAGAAAGGGGAAAAGAAATGGTGAGGGGAGTCAATGCTTACATATTTTAATAATATATAAAGCCCAGAAAGATTTATCACAAACATCCAGACTTCGCCCTGGTGAACCCTTTCTGGACAACAGTGAAACAGATCTTCATAGATGATGGATTGTACATAGAGAGGTACTGACGAGAATTAGGTTTGACATGATAAATTAAAAGGTTAATAATATTTTGTATATTAATGCTGGAAATCAATACAGTAACAATCAGTCCTTAACCAGCTTTCCCCCAAATAACCACACAGAGAACTGTTAATATTTTAAAGCCATAGGCCTTAGCTGGGCAGACTCTCAACTAGTTCATGTAAGTTAACCCCATCTAGCCACCTGGCTAGCTACAGCTATACCTTATAGACCCATAGTCATGTTTGTCTCCTCTCATATCTCCTGGCAAAAGCTCCTCCTCCTCCTCCTCCTCCTCTTCCTCCTTTTCCTCCTCCTCCTCTTCTTCTTTCCCCTCCTCCTCCTCCTTCTTCCTCCTTCCTCCTCCTCTTCTTCTTCCTCCTCCTCTTCCTCCTCTTCCTCCTCTTTCTCCTCTTCTTCTTCCTCTTCCTCCTCCTCCTCTTCTTCTTCCTCCTCCTCCTCCTCCTCTTCTTCTTCCTCCTCCTCCTCCTCCTCTTCTTCCTCCTCCTCCTCCTCCCTCCTCTTCCTCCTCCTCTTCCTCCTTCTCTTCTTCTTCTCCTTCTCCTCCTCCTTCTTCTTCTTCTTTTTTTCTTCTCAGAGTTCCTTTCTCCCTCCCAGGAAGTCCCACCTTCCAGCTAATTGGCCATCAGATTTTTATTAAAGCCAGATATTGCCTTGGGTAGGTGAGGAAGGACAGAGACACATTTTCACACAGCATACCCCAACAGCACACAATTGTGTTGATGTTTTGAGTCATGTCAGTATGGCTAGGACTTTCTACAAGACCTCTGCTACATCAATGAACTTAAGGTCCTTTGAATGAATTTTGACATTTCTCCCCACAAAAGAAGTAACATCCATTAAAAGGCTTTTGTAACAGCTGCTCTCTGTTAAGCCTGCTCCTCAGTGAACCTCTGTGGAATTTTGTACTTCCTGTTCATGTAACTTTGCTTTGCAGCAAAGCTTTCATCCAATCAAACTTCAATAGCTATCATCCATTTGGGAATCCCAAGCATACAAGTACTTTGAGCTTCACCAACAGGAACAATGATGTGAGTTACTGTACTGTCAAACTCAGCACATTTTTAGACCTTCAGAACTACCTCAAGTTTGCTGAGCATGTTTCTCTTGTTCTGAAGAAAGCCTACTGCCTATAAGTATCAGCAGCCCATTCTTCTGTTGCCCCGCATTCATGACCAAGCAGTTGTTAGTTGAAAATGATTCATTCTTCTCTGGTAGCAGCAACAATAATCTCTGTGGGTGGTGGTTTGAATAAGAGTGAGCTCTTAAGCTCATATTTGAATGCTAAGCATCAGGGAGTGGAGGAACTCTCTGATAGGATTAGGAGGTGTGGCCTTGTTAGAGAAAGTGTGTCACAGGGGTTGGGGTTTAAGCTTTCAAAAGCCCATGTGAGACCTAGTATCTCTCTCTCTCTTTTTTTTTTTTAGATTTATTTATTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGAGTCAGATCTTGTTACGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTTGGAAGAACAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCCCGAGACCTAGTATCTCTTACTTTGTCTGATGATCAGGATGTAGCTCTCAACTACTTCTCCAGCACCATGCTTACTGCCATGCTCCTTGACAGGATGATAATGTACTAACCTCTAAAACTGTAAGCAAGTCCTCTAATTAAATGCTTTCTTTTATAAGAGTTACCTTGGTAATGGTGTCTCTTCACAACATCAGAACAGTGACTAGGACAGTCTATATAACCCATGAGGTTATACACCAAATACATTAGCAGCATTCCTGGAGGAACCATAGGACAGTAATACCATGACTAGATCCATGTTCCCATTCTTTTGCATGATGAAGTCATGAGTTTTTCTGATAGCCAGTGGTGTTCAGCAAAGCATTATGCTGGTTACCTTCAGGTGCCCAAGATTGCAGGCTTCATACAATGGTGTCCATTCAGCATGGTCTTGAACATTTGAGTCATTTTCATTTTGTATGAAGTATTCAACAGAGGGCATATTACCCTTAATAGAAGCAATATGAAGCAAAAATTTCCCCTCTGTGATTTTTCCCTCTATTCATATTATTGGGTGACAGCTTCACTGTGGAGGGATTTGACATCTTTGTGTGTGAGCCGAGCTATTCCTCAGAAGTGAGAATGTGCCTGGTGAAAGGCTAAGGGAGCCATCTGATATGTTAATATTTCTCTTGAGTGTGAAGTACAACCATAGAAAGTGAAGAACAGTCACAAGTATGTTTTCTACAAGCAACATTGGCCTAACAAATGTTGGAATGTTGGCTCTCACATCTTTTAGAAATAGGATTGGGAGACCAGCTGTAACCTTTGGGATTTCTATTATGCCCTACTGAATGAAAATATTTTATACAGACTTTCCTCTTCACTCTTGTTCACAGTGTCTGGAGACACTATATGCTCAGTGGTTATAGAGACTTCAGTCAAGCTTTCAGACCATTCAAATTCTGTAACAGAGCTACTGGCTAATTAGTTTATGTCACTATTTACTGGTGGTTGGCTGCAGAGGGAGGCCTTCTAATTCCTCTTTGGACTCAAATCTACTATCTTCTTCCCTGACTTTAAATTCCACTCCAGGTTGATCTCAGGTAAAGATTTCTTCTACTGCTTTTTTGCAGATGTTCTAGGAAACTGCTTTAGCCTTCTTAGAAACAACTTCATGAGGACTTGTAGAAACAAATTCATATATACCGAAGCATGCCAGGGTTTGTCATCTTTTTGTCTTTTGTGGCTGGGTCTGTACTGTGTTTGTACAATTTACTCACAGCATATCTGACCTTCTTACTTTGAGGGCTAAACTACATTTTTATTAAATTATTCTTCCTTTTTTCATAACCAAATAAAATTGTCCAGAGGTGTCATCTTTTGGATCTAAAAGTTTATTATCATGTATCAAGTTTTGACGCGTACTGTAAAGCTGGGCCATACTGTCCAATTGCCCGTTTATCTTGAAGTCTAGGTTCCAAGCTAGAGTGTAACACATCCTGTTCCAAAACAGTCACTTGTACAGTCATTACAGAAGACATGTCCACACCCTTCTAAATGCACGGGCTCCTTCAGAATATTAGAGCAGTAGGAGCAGTAGCCTCTACAGGAGTGCAAGTACTGCGCGGATATGTACCTAGGAGCTCTAGGTAGCCGGCTTCATGGCCTGCATGAACCGGGAGGAGACTTTTTCCTGAAGCAGACCCTGGGCTGCAAGAATCACCTCAGATGGGTACACTCAGGCAGTAGAACACCGTTGTGTGGAGTTTCAGAGCCCTCAAGACATCTTGTGTTTCAATTCTTAAGCTAAGTGAAATACAATATAAATTCAGTGAATTTTTGAGAACTTCTGAAATTAAAGATCATTTTGTGTGCTTTAAAGTGTTATAAAATTTTTATGCTTTTAAATATTCTTTTTCTTTTCTTTTTTTTTTTTTTTTTTTTGGTTTTTCGAGACAGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGAAGACCAGGCTGGCCTCGAACTCAGAAATCCACCTGCCTCTGCCTCCTAAGAGCTGAGATTAAAGGCATGTGCCACCACCACCCGGCTAAATATTCTAATTTTAAAAGGATTGTTATATTTATTTTGTATGTATAAATTTTTGCTTGCATGTATATATATATGCGTGCAGTGCCTGCTGAAGCCAGAAGACAGTGATGGATCTCCTGGAACTGGAGTTATAGATAGTTTTGAGCTACCATGTAGGTGCCAAAATCAAACCCAGGTACTCTGTAAGAACAGCAAATACTCTTAACATCTGAACCATCTCTCTACCCCTAAATTTATTTCAAGTACTTTATGAACAAAATATATAACAACATATAAGTGCTATAAGGTTAGAGTCCAGAAAAAAAAAAAACAAGAAAAAAGTTTTCACGTACCCATCAACTTTTTTACTGAATTAGTTTATTCTGGTCCTTCCTTTTGGTTTCTTTTTAATTTCTTTCATATATGTAAATAATATAAATATGTCATCTGGCACTATGTCAGTTAGATGTCAGGTAAATTGTGGCTCTGTGCCAGGAGAGAAAAAATATATAAAATAAACAAAAATATTGAAATGCCTGCTCTTTAGCTGACTCATGGACTAGGGAAGCATGCATACTTGTACAGACCTATGCAGAGTCAGGAAAAGTGTTTAGAGACCCGTGGAGTAGACGTAAATATAAAGGCTATTGAAGGAAGATTTGGGAGGGGCAAGCAGATGGTCTCAGAGGAGATAGCTGTTGTAACTGTCTCAAGGCATGAAAGGGCTGCACTTTTGAGAACAGGTTGAAGTCATTTCATGGAAGGAAGCAGATGCCAGAGAAATGCATGTGAGCCTGTTAATGTAGAGCCTGTGAAGGTCCCAGGAGAGTGAGAGTGAGGCATAGCGGGGTTTCAGTTCTTTGTTCTACAATGATGCTTTGGCGAATTTTCAAAAATATAGTGCAGTGTGCAACCACCTCAGAGATTGCTTCAGTTTCCAGGGGGAAAGGATTGCATGCAAAGGACTAGTGGGCCACAGAGAGAAGACATCTGAGTAAGATGTGTTTTGAAACAGGGTTTTTGTTATATTTGAAATGGGCTAAATGTAAATGAAATAAGCATGAGTACTTGGTATGAGGAGAAAATTAACTTTCATTTTACAATTTGTGGATCATTGAGAAAGGTACTTTATAGCCAAGGTGTGGCAGCAGGAGCACACTTTTAGTCAGCAGGACCCAGAACATCCTGTCTTCTTTAACCTAAAGGAGAACCCCCAACTGACTATGTCTTAGAATGAGAAGACAATTTCAAACTCATATGCTGCTTTTATCAACAACTCTACCCAGGTACTCATAGTTGTTGATCTTCTAGCTGGATGGGCTCCAATTACATTTAATTTTCCTTTTTTAGGAAAATCCAGTAAGGGAAATTCCACCTAAGGAAGTGTTGTTATGTCTCCATAGTATGAAATAGGTGCAGAGAGTGCATAGGGAAAGGTGACCAGACACCTGACTAAGTGGAACTGGGTGAGGTAGGGTTGTTGGGTAAGGTAGGATATAAAAACCAAAAAGATGCTTATAGTTTGTAGGGCTTGCTTGCCGTTGCAGTTTACACCAAGAATAAGGTTGCTTCTGATCCTACTTGGAGGACATGTAGTTAAAATAAAAACAGAATAAAAATATTTGAAATGTAAATAAAGAAAAATCCAATAAAATAACAGAATAAAAAAATTAAAATAAAGGTGGTGCACACCTTTAATTCTAGCACTCAGGAGGCAGAGGCAGGAGAATCTCTGTGAGTTCAAGGCCACTCTAGTCTACAAAGCAAATTCTAGCATGGCCAGGAATACACAGAGAAACCCTGTCTCAAAAAAAACAAAACAACAACAACAAAAACCCCAAACAAACAAAAATGACAAAAAAAAAAAAAAACCCAAAGGATGATGGAATGCACTCACTGCACTTGATAGGAGACAGACAACTTGTGTTGGCTATAGAATCCTACCTCATTGACCAGATTGTCTTTGAACCATCAAACCTAGCTGGGTGTGCCTTAACTCATGAAGACTAAGTAATGGGGTAGGCCTGACCACATAGAAAATCAGATGCCTAAGCAATTTATTATATTCAGTCTCATCAAAAACTTTATCTTTCCACAG
Seq C2 exon
AACTAAGGACAGAAATTCATCCTTGTCTTTTGTGCTCTTTGGCCTTCTCAAGTCAGAAATTCCTCACTCAACATATGGAATGGAATCATCGCACTGAAATCTTCCCAGGAACATCTGCAAGAATAAATCCTAAACCAGGAGATCCCTGTTCAGATCAGCTTCAGGAACAACATGTTGATTCACAGAACAAAAATGACAAGGCCAGCAATGAAGTAAAAAGAAAATCCAAACCCAGGCAGAGGATTTCAACAACCTTTCCCAGCACACTCAAAGAACAAATGAGATCTGAGGAAAGTAAGAGAACTGTGGAAGAGCTCAGAACAGGCCAGACAACAAATACAGAGGACACAGTCAAATCATTTATTGCATCAGAAATCTCAAGTATTGAAAGACAATGTGGGCAATATTTCAGTGATAAGTCAAATGTCAATGAGCACCAGAAGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACACAGAACTCACACCTCATCCAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACACAGAAGTCAGACCTCATCAAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACACAGAAGTCAGACCTCATCAAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACACAGAAGTCAGTCCTCATCAAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACACAGAAGTCAGTCCTCATCAAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACAGCGAAGTCAGTCCTCATCCAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACAGCGAAGTCAAACCTCATCCAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACAGCGAAGTCAGTCCTCATCCAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACAGCGAAGTCAGTCCTCATCCAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGCGGGGCTTTACACAGAAGTCAAACCTCATCAAGCACCAGAGGACACACACAGGGGAGAAGCCCTATGTTTGCAGGGAGTGTGGGTGGGGCTTTACACAGAAGTCAGACCTCATCCAGCACCAGAGGACACATACAAGAGAGAAGTAATATATTTTCGAAAAGAATGAGAAAGCCAACAGCAATAAAACCACATCTCAACAATTACAGGAAGACAAATGTAGTCACTAAACATCTGTTCTGCTAAAACTTCTAAGGAGTCTACTGATTTTTAAAACTAGAATATAAAATGACTAGAAAAGGGAATTAAATCCCCTTCTTTTTCTTTTCTTTTTCGGTTTTTAAAGACAGATTTCTCTGTGCAGTCTGGTTGTCCTAGAACTGTTTCTGTAGACCAGGTTGGCCTCAAAATCAGAGTTGCTAGCTTCTGCCTCCCCAATACTAGGAGTAAAGCCCCATTGCAAATTCTCATTTTCTTTCTTTTCTTTCTTTTCTTTCTTTTTTTTTTTTTTTTTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACGCTATAGACCAGGCTGGCCTCGAACTCTGAAATCTGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGCACCTGGCTACAAATTCTCATTTTCAAGTGAGATAAGTTAGAAAGAAAAACAAACGAACAACCCCTCCTCAAAAACAAAACAAACAAAAACAAACTGTTAGGAGCGACCCTGTTTGAATGTTAGCTGCCTTGTCAGCCATAAGTGCTTACTTACAAAGTCTTGGCCTTAGTGGAAAAGTATTAGCTTAGTTGAGATTTCTGTGGGAAAAAGTTGAGGCCTCTGTGGGAAAGTACTACATAGAGTTCTGTTCCTCCTGCTGAACTTTTTACCTAGCCAATATCCTGCTTTGGGGAACATGTACGTTCCCCCAGAAACAAAGCGATTCTGCGTCATCCCCCTACCCATACTCTGCTTCTGTGGGCATAAAACCTGCCTGGGAATAATAAAAATGTGACAGCTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000051977-Prdm9:NM_144809:9
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.345
Domain overlap (PFAM):
C1:
PF0085623=SET=PD(48.8=62.1)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6),PF134651=zf-H2C2_2=WD(100=5.6)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: