MmuINT0133633 @ mm10
Intron Retention
Gene
ENSMUSG00000052751 | Repin1
Description
replication initiator 1 [Source:MGI Symbol;Acc:MGI:1889817]
Coordinates
chr6:48594791-48599082:+
Coord C1 exon
chr6:48594791-48594976
Coord A exon
chr6:48594977-48596292
Coord C2 exon
chr6:48596293-48599082
Length
1316 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGAG
5' ss Score
0.88
3' ss Seq
TTGTGCTTTTCCACCCTCAGCAG
3' ss Score
7.24
Exon sequences
Seq C1 exon
GTAAGGCTGACCTCTCAGCAGTTAGAGGTCTGAGCTCTGCCATGGGGATAGGGATGTCTTTATTGCTACAGTTTTCTCTGTCATCCGGGGGCTACCGAAGTGTGGGCCGAAGCAGCCGAAGTCTCCCCAGGAACATCCCCAGAAGGAGCTGGAAAAAGCCTCACCCCCAGCTCTTCAGTCTTCAGG
Seq A exon
GTAGAGTTTGGCCTTTCTTGTGCCCTCAAACCAACCCATAACTCCAGCGCTCATGTCTCCTATACTTGCAGGACAGGGATGTACTGGGGAAGGAATCCATTCTCCTATCATGGAGTCTTCCCTGGGTTCAGGCGGGGGTGGGAGTTGGGGGTTGGTGGGGTTGAGTCATGTCTGTAGTCCCCCAAAAGAGAGCAGGCTGTAAAGGAATTCAGGAGGTTTTGCCCGGACAGAGGCCACGAACAGACATGAAAAGGTCCCTGGGAAGTCTTACTGCCACCCCTGAACTGACTCTGTGTAGGAGGCTCTCAGGAATCTGGGTTCCCCTGTGGGGTATAGCTGAAGTGGGGCAGTCCTTGGCCCGGTTTGGGCAGGACCAGGCAAGGGACAGAGATTATGATCTCTTCTTCCCACCCCTTTCTTTACCCCAGTAATCCCTAGCCCCCTTAAGAGATGCTGAGCCAGGGTTCTCCCTCACTCCAGGGGAGGGGCAGCAGACTGTGGGTGTTCCTTGGATTGAGAAGTGCTTGCCTCTCCCCCCTCCCCCCAATGTCCCAGTTGCAATTGCTTGGGTGTGGGTGGAGAAGGGCTGGCAGGCAGACTGTGGGTAGTCTGGACAGGTGGTGGCCTGGTGTTAGTCTGTGCTAGTAGAGGCACCTTGCCCACCTCCCAGGTCTGAAGAAAGGCTGTTTTCACTTGCTCTCCAGGCTTAGAGCTGAGCTGGGGAGGCTGGAAGTACCTTCCTCAAGGTTTTAGTCAGATGGTTTTTGAGGAGATCTCCACACACCTAGGTGTTAATGCGGAGCACACAGTGGCCTGGGTGTTGACAAGATCCTGTCTTGTGTGTCCGCCCCAAACCTCCCCCCATCCCGTCCTGCCCCCCCCCCCCACCTTTGGTTTGCTCATCGTTTACAGTATCACCTCAGGCAAGTCCTACCACTGTTTTATGCCCCACACTTGCTTCATGTGCCAATTAGGGAGCTCTGGTGTGGTAGAAGAAAGTGCTTGCCACAGGGAAAGGCAATAGGGGGGTTGCGATATGTAGGGTACAGTAGGAATATTCAAGAATATTTTCTGTAAGACCTCCTGACACAAGGTAGATACTATGGGAGAATCCCAAGGAATACCAACATGTCTCCCTTCTAGAAGTTTCCAGGGCAATAAAGATACAAAGCTATTCCCTAAGATAGAACCGTGAGGGCAGTTCCTAGAGGGAGGCGTTCTTCTTCCATGGGGTGGGAAGGGAGAAACTGGGAGCACACACTGGCCTGGGGATTGACAACAGTGTTCCTGCGGTGATTGTGCTTTTCCACCCTCAG
Seq C2 exon
CAGAGGAAGAACCGATGCTGGAACAGCGCTGCAGGGGCCCCACGGCCATGGGCCCAGCTCAGCCCTGGCTCTTTTCTGGGCCCTCCCAGGAGTCCTCCCAGCCCGACAGAGGGTTGAGGTACCAGGGCAAATCAGCTCAGCCAAGAGGCCAAACCCCAGGCAAGGTCCATCGTTGTGCCCACTGTCGGAAGCGCTTCCCGGGCTGGGTGGCCCTGTGGCTTCATGCTCGGCGGTGCCAGGCCCGGCTGCCTCTGCCCTGCCATGAATGCAACCAGCGCTTTCGCCACGCCCCCTTCTTAGCGCTGCATCTTCAGGTTCATGCTTCTGCAGTCCCCGACCTGGGTTTCATCTGCCACCTATGTGGGCATAGCTTCCGAGGATGGGTAGCCCTGGTTCTGCATCTGCGGGCTCACTCAGCTTCAAAGCGGCCCATCACTTGCCCTGAATGCGACAGACGCTTCTGGCGACAAAAACAGCTTCGAGCTCATCTGCGAAGGTGCCAGCCCCCTGTCCCTGAGGCCCGGCCCTTCATATGCGGCAACTGTGGCCGGAGCTTTGCCCAATGGGACCAACTGGTTGTTCACAAGCGGGTGCACGTGGCTGAGGCCTTGGAGGAGGCAGCAGCCAAAGCCCTGGGTCCTCGCCCACGAGGACGTCCCGCAGCTCCCAGGCCTGGTGGAGACGCTGTGGACCGCCCCTTCCAGTGTGCCTGCTGCGGCAAGCGTTTCCGCCACAAGCCCAATCTGATCGCCCACCGCCGCGTGCACACTGGTGAGCGACCACACCAGTGCCCAGAGTGCGGGAAGCGTTTCACCAACAAGCCCTACCTGACCTCGCACCGGCGCATACATACCGGCGAGAAGCCCTACCCATGCACCGAGTGTGGCCGCCGCTTCCGCCACAAACCCAACCTGTTGTCGCACAGCAAAATCCACAAGCGCTTGGAGGTCTCAGCGCAGGCTGCCCCACACCCCGAGAGTCACCAGATTGCAGCAGAGCCTATGGCACAACCTGCACTTGGGGTGCCCCTGGGGTCCCCGCGGACCCCAGCTGAGGCACCTGCGCTCCTGCATAGCTGCTCCGACTGCGGCCGCAGCTTCCGGCTGGAGCGCTTCCTGCGGCTACACCAGAGGCAGCACACAGGGGAGAGGCCCTTCGCCTGCACAGAGTGTGGCAAGAACTTCGGCAAGAAGACGCACCTGGTGGCGCACTCACGCGTGCACTCCGGCGAACGTCCCTTCGCCTGCGAGGAGTGTGGTCGCCGTTTCTCACAGGGCAGCCACCTGGCAGCCCACCGGCGAGACCATGCACCAGAGAGGCCCTTCGTGTGCCCGGACTGCGGCAAGGCTTTCCGCCACAAGCCCTACCTGGCTGCGCACCGACGCATCCACACAGGCGAGAAACCCTATGTGTGTCCCGACTGTGGCAAAGCTTTCAGTCAGAAGTCCAACCTGGTGTCCCACCGGCGCATCCACACAGGCGAGCGGCCCTACGCCTGCCCCGACTGTGATCGTAGCTTCAGTCAGAAGTCCAATCTTATCACACACCGGAAGAGCCACATCCGGGATGGCGCCTTCTGTTGTGCCATCTGTGGCCAGACCTTTGATGACGAGGACCGACTCTTGATGCACCAGAAGAAGCATGATGCCTGAGAGGGGCCGTAGGCCTAGGAAGACAGGCCTGGATATCCTTGGCAACAGGGTGTCAGTGGTCCGGGTGGGGTACCTACACTGATGCTGCTAGAGGAACAGGTAAAGATCCCAGAGGGATAGAGGAGACAGTGATCTGGGCTCTGTTTAGGAATGGACTTTCCCCTAGGTATCCAGGGAACCCATTTTAGAATTCGGGGGACCTGGCTTTGAGCTAGTTGGCCCCCAGCCCCAGCTGGTTTTTCTAAGGGTCAACTCAGACTGCCCTGTACCCTGGAAAAATAGCAATAGCAGCCCCATCTACCCTTTGAGTCCTCAACTAAACACCAGTGGGAAGAGAACCGTTCCATCCTCTGGTGTTAACGCCTTAATGTCCCCAGTATTTACTATGAGTTGCTTCAGGTCATTTTTTGATTTTTTGTTTTTTCTTTTGGAAGTAGGTGTGGTATAGTCGTTAGTAAATGAATCCCTGGGCAGGGAATATGGGCTGGCCGGCTGCACCTTGGTGAACCTGCTGGTTAGGGCAGCAGCAGAGGTGAGGCTGTTCCTCTCTCTCTCTGTCTCTCTCTGGTCTCTGTCTCTCTCTCTTTTTTTACCAGAACCCTTCTGCAATGCCTCCTGCATAGGTCCCAAGATGTGTAGCGATCCATCCCTGGTTAGCAATTCCATCAATTTCTTGCATATTATCCTCCCAGGACATTGATTTACTCCTTTACCAGCCTGGCTTTTTTTTTTTTTTTTTTAATCTGCCTGCTCTCCCCTAAGTATAGGCCTTCCTGGTGGTTTTGTTTAACCCCATGACCCTCCCCAACTCTTCTCAGAGCTTTGGGGGTTATGTGAAAGGCTGACTAGTTGAGGGTTTAGCTGCAGGGAAGGTCCTGGGTAGATTTCCTTTTTAAGGTTCCCAGGGTGTGGATGCCAGCCTCCACCCATGCACCTGGGTACTGGGGCACTGTTACCTCCAGAAGGCACTACTTCTATCGTAGGGCGAGTCTAATTGTTAGACATTTCTTACTTATAGTGATTGGATTCTGCTTTCCTATGACTTCTGCCTACTGGGTCTTGTTTTGTTCCTTGGATCGAAACAGAACCGTTTACCCACCTTTACAAACTAGAGAATAAAGATTTGGTTTTAGAACTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052751:ENSMUST00000118229:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.554 A=NA C2=0.266
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=4.9),PF0009621=zf-C2H2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.8),PF134651=zf-H2C2_2=WD(100=4.8),PF134651=zf-H2C2_2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=4.8),PF134651=zf-H2C2_2=WD(100=4.8),PF134651=zf-H2C2_2=WD(100=4.8),PF134651=zf-H2C2_2=WD(100=4.8),PF138941=zf-C2H2_4=WD(100=4.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTCTCCCCAGGAACATCCC
R:
AAAGCGCTGGTTGCATTCATG
Band lengths:
349-1665
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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