MmuINT0134917 @ mm9
Intron Retention
Gene
ENSMUSG00000036202 | Rif1
Description
Rap1 interacting factor 1 homolog (yeast) [Source:MGI Symbol;Acc:MGI:1098622]
Coordinates
chr2:51965431-51971914:+
Coord C1 exon
chr2:51965431-51968520
Coord A exon
chr2:51968521-51971767
Coord C2 exon
chr2:51971768-51971914
Length
3247 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
AATTTATCTTGTACTTTCAGATT
3' ss Score
9.01
Exon sequences
Seq C1 exon
GAAGAGCAAATGGAAAGTACTATTTTCATCCATCAAGATGCCCCGGAGAACTGTGGAATAGATGAACATTCTGAGAATGCTTCTTTACCAAATTGTGGTGGCTCTGTTGCTGAAACCAATCCAGAAACATTGATCACTGGTTTTGATGCTAGAAAAGAAGTATTAATTTCATCAAAGATATTGTCTGCTGAAAGTTCATCTAGTACAGAAACTTCGGTGGTCAGCAGTAGTTCAGTTTCTAATGCCACTTTTTCTGGAACTCCTCCACAGCCTACAAGTCGGAGACAAACCTTTATTACTTTGGAGAAATTTGATGGCTCAGAAACTAGACCTTTTAGTCCATCCCCCTTGAATAACATATCTTCCACTGTTACAGTGAGAAATAACCAGGATAACACAACTAACACTGACATGCCACCAAAAGCAAGGAAAAGAGAAGTGACGAACTCAAAATCTGATTCAGAAAATTTAGCGAATGCAGGTAAGAAATCAAGTCGGAGATGGAGTAAAGCTGAGCAGTCAGTTACTAAAAAGTCTAAGCCATCACTGACATCTGAACAGGAAGAGCACTCATCCGAAAATAACTCTCCTGATCTGCTCAGCCCAACAGAACATGTGTCAGAAAATGATGATCATCCTTCTGAAGCTACCCTAGAGCATAAAGATGGAGATCCTAAACCAGCAGTAGAAAATGCTTCATTGGAAGACTTAACAACAGAAGAGAAAAATGTAGGCATTAATATGGAATCTAAAGAAAGTACAGCCTCAGTTGTAGCACGAACAGAACAAATAGTAAATGAAGATAGTCAGGCTGCTGCACTAGCCCCAAATCCAAAAACACTCCGACGGTCTTCGAGGCGGCGTTCAGAAGCTGTAGATTCTTGCAGTGACAGCCAAGAGAGAGAGAGTGGTCAGCAAAAAAAGGAAAGACGAAAGGAAGAAGAAAAAATAATCTCCAAGAGTCCGTTGCGTATCAAAGATGATAAGTTGCCCACGCAAAAACTAACTGATGAGTCACCTATACAGGAAAATTTAACTGAAAAGGGAAATACTTTACCTGAGAGAACTTCAGGGGAACCCAGTGTTAATGCTGAAATTGACCAAAATAGAAGAAAACCAGACCTTGAGAATGTTAGTTCTGAAGGAGGTGGTGGTACCCTGGACAATCTAGACAAGTCGTCTGAGAAACCTTTAAGAGGACGGACACGTTATCAAACAAGAAGAGCTTCGCAGGGTTTGATTTCTGCTGTTGAAAACTCAGAATCTGACAGTTCTGAGGCAAAGGAAGAAGTTTCTAGAAAGAAACGATCAGGGAAATGGAAAAATAGAAGCAGTGACAGTGTTGACATTGAAGAACAAGAAGAAAAAAAGGCTGAAGAGGAAGTTATGAAAACTGCAAATCAGACACTCGATGGCCAGGCAGTTCCTGATGTTGATGTAAATGCAGCGGCTCAGGTTTGTGAAAAAAGTACAAATAACAACAGGGTCATCCTCCAGGATTCTGCTGGGCCTGCAGATTCACTGCAAGCTCCACCCAAAGGCGAGGAGAAAAGTAAGATTAACAAATGTGTAGACAGTTCATTTGTAAGTCTACCTGTGCCAGAGTCAAACCTCAGGACTAGGAATGCCAGTAAGAGATTATTATATAAACAAGATAATGATAGTAATGTGAGGGTATCAGACAGCTCTCTGTCTCCCGAAAAATTCACCCAAGTTGAATGCCAACACAAGAGAAGTAGGAGAGTCAGGAGATCTAAAAGTTGTGACTGCTGTGGCGAAAAATCACAGTCCCAGGAAAAGTCATTTATTGGGTTAAAGAACACAGAAAGTTATGCTATAAAGAGTGTGGAGAAAAAAAAGACAGATCTACAAGTACCTGAGACTGCCCCTGAAACTCGTGAAGCTCGTGACCATGCTGAAACAAAGTTGGCAGGCGAAGAGCCTCTTGTGAATTTTCATGTGGGTCTTAAAGAAGAGAATTGTACTACTGGTGATTCAGTTAAGTCTGAGGCTGAGTTGCAAGAAGCTTCCCTTCCACCTGAAATAGTAACTGTGAAAGAGAAGACTTACGATACAGACGCTAGTGAAGCAGTGTCTGAAATCCAAGGGCCATGTAGTGAGAACCACAGCCCTGCTGAGGACCCAGGCTTAAGTGAGTGCAAAGACATTTCACAGAAGCAGCTTTCAGAGAACGGAGAGCTTGACATCAGCGATGTAGGGAAGGCATGCAAAGTCATAGCTGGGTCCAGTCCAGAGGGAGTTGAAACTATGGAATTAAATGTAAGAAATGATGCATTTGTAGCTGCTGACTCTGAAAAGAGTACCCAAATGGATGTTTCTGTAGATGTGGCAACAGAGGAAGATAATAAAAAAGATGAATGTGAAGCAGTCACAACTGAAGTGAATGTTGAAGGAGTAGCCACTGAGGACTTTAATTCAGGTATGGATCTTTCTGATACTCCCATACCTGTAAGCAAGGATGTTGAGACTGAGCACGCAGCTAGTGGGGAAATAGAGGGGGAGAGCAATGAATCTGATTCAGGCTCATGTGAGGAAATGAACAAAGAAATGGGAAGTCACAAAGCCCAGATGAGCACTGAAATTGACAGTGCCAGGGTAAAGGAGACGGACATACTTGCCAGTGCCTCTAAATCTGAAGAAGCGCTGATTGGAAGACTAGACGTCAACACCCAGAGCTTTGTTAGTGACATTGAAATGAGTTCTGGAGAAAGAACTGTTAATTGCAAAACTGAGACATCCATTGAACTTAATAAATTAGATGAAGCAAAATTAAGTGGCAATGAAGCTACAGTGGGAAATGATACTCTGCAGGAAGTTTGCTTTACTTCAGAGAAAGTGGAGAAATTACCACAGTGTCTGCTAGTTCAAGTGGCTTCTGAACTTGGAGCAGAAAGCAATACTACGTCTCCCGAAAAGTTAGAGCTGGATTCTTTTGGATCAGTAAATGAAAGTCCTAGTGGTATGCAGCAGGCACGTTGTGTCTGGTCACCTTTGGCTTCTCCATCCACAAGCATTTTAAAGAGAGGACTAAAAAGATCCCAAGAAGATGAGATCTCACCAGTTAACAAG
Seq A exon
GTAGGAGGAATGACACTAATGAATCTAATGTTTGCTTGGAATATGTGGTCACTATGTGAAACCTAGTAAAGGACAGGGTGTTAGCATCATGGCCACTCACCATGGGAAGGTCAGGAAGGGTCTCAGGTGGTCTTGCACCTCACACTCAAAAACTTCATGTAGGTGTACACATGGGACATAATGGGTAGCTCTCATTTAGGATCTTCCTTTTCTACAATCCAGTTCATGGAGCCAGATTTAAGAAGCCAAGCAGCACTGATTATTGTTGATCAAAAGTGTCAGCACTTAATATGTGTTTGGATTTAACTAATATAAAATATTCTAAGACAATTAAAATATTTTGTAACTACCTCATTTTTAATTTCTTTCCTGTAGTCCTTATCCTCCTTTGTCCATTGTGGAGATTAAATCCATGGTCCCGTTTATATATGCTCTATTACTGCACCACATTGCCCAGGACTTAGTTTTTTTTAGACTTAGGTGCATGCCACCAAATTGATTCTCCCCTATCCAGTTTTTGTTCCTTTTCAAGGTTGGGGGAATCCAGTGCACAGTGTTGAGTATGTTTGGCACATGGCACATACTCGGTCACTGAGAGATTCCCAGGTGTTCATTTACTATTTATTTCCTTAATGTCTGTTTTTTCTGCACTTAACTATACACATGAAAAGCTTCAGGAAAAAATGGGATTATCTAGGTTACATAGGTTAAATGAATGAGAAAAATGTAACCTCTGCTTGACATAAAGCATGTCCTAAATGATGCCATGCTGATCTTTTCAACTTAATCTTGAAATTGATATCTGATACTATAGAATATTTATTTGAACATATGTGTATGGTATATATAAAGATGGTGCTTTGAACTTTGCCCTTACAAGCACGGATGTTTTTAAATCTTTTTTTGGAGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAACCTCTTGTTTTCCATGCTGACCACTCACGCCTCAGCTAGGGTTATAGTCTGTTTCATCACCTTTGGCTAATAAGTATATCTTTTTCGACTAATTTTTACTACATTTAATTATTTGTATGAATATATTAGGACATGTGCACAGTATAGTAGTGCAGGTGCCTATAGAAAGTAGAGACATCAAGTGCTGCGTAGTGTGGGTGCTAGGACCTTTGAAGTGCAGTGTGTGCTCTTTTTTCTGTTTTTGGTTTCTTTGAGACAAGGTTTCTCTGTGTCCTGGCTGTTGAGTAACTTGTCTGTAGACCAGGCTGGCCTGGAACTCATTAGCCTGCCTCTGCCTCTATCTCCAGGAGAGCATGCACATAACTGTCCAGCTGCAGTATGAACTCTGAACTCCTTTAGTTTTACAATCTGGAAAAAATAACATTAAAAAGGCTTCTGAGACTTTAGAGATGAAGTTGTTTAGGAAGATGTAACAGCTCTTGATTTTTATTTTATTTTACTTTTGGTTTTTTTTGTTTGTTTGTTTTGTTTTTATGACAAAGGGCCCTCACTATGCAGTTCTGGCTGGCCTGGTGTTCACACATTGGTAGCTATATACTTTTTTTTTTTTTTTTTTTTTTAAAGGAAACAGGTTCATTGTGGACTGCAAAGGGTAGTAAGGCAGTAACAAGATGACAGAATTCTGAATTCTTTAGAAGGCTTGTACAACTTAACTAGAATAACTATTGTACTACTGCTTGATAGGAACTTAGGTTTAGTGTCTGTTTCTGTCTCTGTCTCTCGTTGAAGACAGGGTCTTGCTATGTAGTCCTGGCTATACTTGGGAAGATTTAATTTCTGTGGTAGATACTTTGCCCATTCTTAAGAATCAATCCTAGAAGATATGGAATGATACTAATATCCGCTATATATTTTAGCAAATAGCTCAATGTGAACATATTGTAGTCCTTTACAAGAAGCAAATTCAGCCACAGTGAGGTTAAGATAGATAAAAATTGTTGCCCTGTGGCCACAATATTTGTATTGCCTTCAGAGAGTTTAGGGCAGGGCACAGGAGATAGCGTGGGGGATCTCATGTTTGCAAAGCAACCATGAGGACCTGAGTTCAGTTTCTAGAACCCACGCTTAAAGTAAGAATCCTGGGCTGGGTGGCATGTCCTAATAATCTCTGTCTTGGGGAGACAGACAGCCATATTCTGGGGTCTGCTGCTTAGTAAGCCTAGTCTACTTGGGGAATTTCAGGCCATTGAGAAGCATCATCTCACAAAATTAGTTGTACAACACCTGAGCAATCACTCCCTTCAGAGTTGTCCTCTGACTTCCACATGCATGCATTCACAAGTTTACATCGATGATTAATAAGATATACCAGAAGCCAGTTACTACCATCCATAGTATGTATAATAGAGTTTATTGGTTAACTAAATCAAATTATACAGGATTTTTAAAAGAAATTTATTTTTTTTTGGTCTGTACGTTTGTATATGCAAAAGTCAGTGATCCTGGTGAGGCCAGAAGAATGTATCAGATCCCGTGGAGCTGGAGTTACAGACTTACGTAGAACTGGCTTGTTAATGTTGGTGCTAGGATTTGAACTCTGGCTGTCATTATGCAGCTGGTGCTTTTAACACCTAAGCTGTCTTTTGAGCCCTTGTTTTGTTCTTTGAGGCTGAGGTTTCACTATGAAGTTCCAGACTGGCCTCAATTTGGTGATTTTCTGCCTTTGTCTCCTGTGCTGGGATCACAGGTATACATTGCCATTCCTGCATTTGTTTTTTAGACAGGGTCTTTCTATGTAGCCCTGACTGATCTGGAACTTGGAAATCTATACCGTGCAGACCAGGCTGATCTCAAACTTTGCCTCTTGAGTACTAGGATTGAAGGTGTACACCATCATATCCTTTGTATTCATTGTACATTGCTAATTTAAAGAGTTAAAGTTTTGATCACTGAAGAAGTAGTGTAGTATATAATTAGGATGAGCTGCAGTATTAGGCAATATCTGAAAGATGGAACAGTTGTACAGGAGGGTTCTAGTAAAATAAGCTTGGAAATACTTGCTTTTGCACAAACTCAAGGTGTTGTCATCTTTTGGGGTGGGGGATATGTACATACATTTAATCCAAGTTGTTTTATGTTTAACTCATTGATTTACATAGACATTTGTAAGGGTCTAAAGTAAGAATAATATCTTTTTAATCACTAGTCAATTGTAAAAGTGCCAATTAATGACAGGTGTTGTCTTCTTAATGAAAATTTATCTTGTACTTTCAG
Seq C2 exon
ATTAGACGTGTCTCGTTTGCAGATCCAATATACCAAGCAGGATTGGCAGATGACATTGATAGGCGTTGCTCTGTTGTTAGATCTCATTCTTCAAATAGCTCTCCCATAATAAAAAGTGTTAAAACTTCACCTACTTCACACTCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036202-Rif1:NM_175238:30
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.840 A=NA C2=0.327
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: