MmuINT0132987 @ mm10
Intron Retention
Gene
ENSMUSG00000037070 | Rbmxl1
Description
RNA binding motif protein, X-linked like-1 [Source:MGI Symbol;Acc:MGI:1343045]
Coordinates
chr8:78505271-78508898:-
Coord C1 exon
chr8:78508799-78508898
Coord A exon
chr8:78506864-78508798
Coord C2 exon
chr8:78505271-78506863
Length
1935 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGT
5' ss Score
6.86
3' ss Seq
TAATACAATAATATTCACAGGTG
3' ss Score
3.53
Exon sequences
Seq C1 exon
TTCGCGGCCTCTGGTTCTCGGCGGGAGCGGCGGCGGCAGACGCGTGTGGCGACCGGCGCGGGAAAGCGGCTTCCTAGTTAGGGAAGCGTTAGCCCCGTGG
Seq A exon
GTAGGTTGAAAATCGGTGGCCGAGCAGACGTCCGGGACGGCAGGCCCCCCGCCTTCCCGCAGCGGCGGCGGCGGGAAGGCGGGGAAGGCGGGCTGGGCCTTCCCGCCAGGTCGGTGGCCTGCCCGGGCCTTTCTGCCCGACCGCCTCCGCGGCCAAAACCCGCCTCGGGAGTGGGGAGGACGGCCGGGATGGGGCAAATCTTCCCTGGGGGGCGGTGAGAGAGCGACCCAGGCTCCTCCCCACCCGTGTGCCGCGCGTGGGCGGGCGATTCCGGAGGCCGCGTGGTGCGGGCCTTTGCCTGACCCCGAACCACTAAAGCAACAGGACAACTGAGAGGGGGCCAGGAACTCAGAACAAAAGCAGTGAGGGCCAGATCCAGGGTGGAGGGTCTGATGTCCGCCCCCTCCCCCAACCCTCGGTTTCTTGCATTGCATTTTGGCGAATCTATGACATAGTTTCACGAATGGTCTTCCGAGCATCAACCCTTCCTCTTTATGCACCCAAAGAAAGAAAGGAACAAAGTATTGTGGGACATTTTGAAGCAGCCTGGTATCAGCTACTTGAATAGTTTACTATGGAACGTAACGTTCGAAAGGGATTGTACCAGACTTTCATTCTGAATGCATTCAAAGCTTGAAAGAGACTCGGCGTGCAATTTGCTCTATTTAACTTTATCTTGCTGACATGACTCGCTATCCAAAAACTAAGCTGCTTTAAGCAGTTGTGCTATCAGTTCTCAGTTGCACAGCCCCCACTGCTCGGTAATTACGCATCAGGCAGCATGAAGAAAAGCTAATCTCAAGATAAAAAGAACTTAATAGGGAGACATTAAACAATTTACCAGGCAAAAGAAGTACATGAAATGTGATAAAGGCTTATTATAAGACAGTCACAAGGTAAGTGGAGTTCTAGGAAGTAAAATTTATAACATAATTTTCTTCAGTAATTTTGCTTGGTTCAAAAGGAAAAAAAAATCTGCCTCAGTCATCGAATACTCAAAAGGTCATCACAGATAGTGCTGCTTAAGTAAGGCTGCTCACAGAGTCTTTCTAGAGATTTTGACCTGTTTAGAACAAAATCTTAATTCATAGAATATTTTAACCGTAGTTTTGTGAATTGTATTGTCAAGGACTGTATTAGTTTGCTAGGGCTGCTATAACAAATAGTCCCCTCCCCGAGTTAGCTATACTCAGACAATAGACATGTTGTTTTACTGTTGCAGAATAAGGAAATCCAAAATGGAGATATTGGAGGGCCATGTGTTCTAAAGGCTCTTTCCAGCTTCTTGTGGCTGTTAATATTCCCTGGCTTCCTTGATTTAGGTTCTGATGCTCCAGTCTCGACCTGGTTAGGCATCACATCTCCCTCCATATGTTTCAAGTGGCTGCTCTCTGCATCCTTGAGCATTCATTACCTTTTTTCTGTGTGTATCTTTAAAAGATACTTGTCCTTGGATTTAAAGCCTAACCAGATAGTCCAGAATAATGGGTCATATTCATTTAGATTAAGTTTATGAGCCTATATCCTTTCTCCAACTTAACTGGAGTACCATCCCCTGTAAAAGACACGTTTTCCCATGACCTCAGAAGGTGACTTGTAGAAATCAGATGTTGATAGGTATGAAAAGCTGCAGTTCTTCTGAATGTCATACAAAGGTGTGCAGGTGGAGTGTAAGCACCACGTAGGGTGGAGAGAGGAACTAGATTGAGATATCTATAAGCCAAAGTAGTCTAAGAATTACTGACAACCACTGGAAGCTAGGAGGGAGTCATGGTACAGATTTTTGTTAAGGCTTCTGATAGAAACTTACCTTCATACTTCGTGACTTCCTGAACTGTAAGAAAATCAATGTTTTATAACACACCTCCCACCCCCAGCCCTTTCGCAATGCATTGTTACAGCAGCCTGAGGAAACTAATACAATAATATTCACAG
Seq C2 exon
GTGCTCGTGTGCAGTAGTCCTAGTGGCTTTTCTGTTCTGTTCTGAGACCCAGCAGCTGTCACCGGTGAGCTACTTGGAAGGCCGATTTGGCGAGCTTGTAGGAGGAGCTTGAGACCTTCACGTCCCCTCCGACTCTCAGCTGGAAGGCAAGATGGTTGAAGCAGATCGCCCAGGAAAGCTCTTCATTGGTGGGCTTAATACAGAAACAAATGAGAAAGCCCTTGAAGCAGTATTTGGCAAGTATGGACGAATAGTGGAAATACTTTTGATGAAAGACCGGGAAACCAACAAATCAAGAGGATTTGCTTTTGTTACCTTCGAAAGCCCAGCAGATGCTAAAGATGCAGCTAGAGATATGAATGGAAAGTCCTTGGATGGAAAAGCCATCAAGGTGGAGCAAGCTACCAAACCATCTTTTGAAAGTGGCAGGCGTGGACCACCTCCACCTCCAAGAAGCAGGGGCCCTCCCAGAGGTCTTCGAGGAGGAAGTGGAGGAACTAGGGGACCCCCTTCACGTGGAGGATACATGGATGATGGTGGTTATTCCATGAACTTTAACATGAGTTCTTCCAGGGGACCACTTCCAGTAAAGAGAGGACCACCACCACGAAGCGGGGGTCCCCCTCCTAAAAGATCAACACCTTCCGGACCAGTTCGAAGCAGCAGTGGAATGGGCGGAAGAACACCAGTGTCCCGTGGAAGAGATAGCTACGGGGGTCCACCACGAAGGGAACCCCTGCCATCTCGCAGAGATGTTTATTTGTCCCCAAGAGATGATGGATATTCTACAAAAGATAGCTATTCAAGCAGAGATTACCCAAGCTCCCGAGACACCAGAGATTATGCACCGCCACCAAGAGATTATACTTACCGTGATTACAGTCATTCCAGTTCCCGTGATGACTATCCATCAAGAGGCTACGGTGATAGAGATGGATATGGTCGGGATCGTGACTATTCAGATCATCCAAGTGGAGGTTCCTACAGAGATTCATATGAGAGTTATGGAAACTCACGCAGTGCACCCCCTACACGAGGGCCACCACCATCTTATGGAGGAAGCAGTCGCTATGATGATTACAGCAGCTCACGTGATGGCTACGGTGGAAGTCGAGACAGTTACTCAAGCAGCAGAAGTGATCTCTACTCAAGTGGCCGTGATCGAGTTGGCAGACAAGAACGAGGGCTTCCCCCTTCTATGGAAAGGGGGTACCCTCCTCCACGTGATTCCTACAGCAGTTCAAGCCGAGGAGCGCCAAGAGGAGGTGGCCGTGGAGGGAGCCGATCTGATAGAGGGGGAGGCAGAAGCAGATATTAGAAACAAATAAGACTTTGGATCAAGGTCTCCATGCAAAGAAACAAAGGATGGAAAGTCTTCTGTCATAACTACCCAAGGACTACTAAAAGAAAAGTTGTGTTACCTTTTTAAATTTTCTGTTTTAAGTTTCCCTTCATTTTTGTGTTCTTGTGAAGAAAAAGTAAAACATGATTAATTTTGATATTATGAATTGCTTTCAACAAGCAAATGTTAAATGTGTAAGACTTGACTTGTACTAGTGTTGTAATTTTCCAAGTAAAAGTGTTCCTAAAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037070:ENSMUST00000049245:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0007617=RRM_1=WD(100=18.3),PF080816=RBM1CTR=WD(100=11.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
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:
AGTTAGGGAAGCGTTAGCCCC
R:
GCTGGGCTTTCGAAGGTAACA
Band lengths:
355-2290
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