MmuINT1031952 @ mm10
Intron Retention
Gene
ENSMUSG00000048562 | Sp8
Description
trans-acting transcription factor 8 [Source:MGI Symbol;Acc:MGI:2443471]
Coordinates
chr12:118847538-118852578:+
Coord C1 exon
chr12:118847538-118847654
Coord A exon
chr12:118847655-118848378
Coord C2 exon
chr12:118848379-118852578
Length
724 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
3' ss Seq
CTTCTCTGCTCCGGTCTCAGGAA
3' ss Score
8.83
Exon sequences
Seq C1 exon
CACAGGAAAGGTTCGTAGGGCATTGAGACCCGCCACCTCGCAGAGCCTGGCCGCTCCCTGCTCGGGAGAACTGAGCATAGCCCCTAATACACTCGACGATTTCGAAGGGGAACGCGA
Seq A exon
GTAAGTTTTTCCCTCCTGGGCATACTGCAGATTCTCCCCCTTCCCCTTAATATTTTTCCTCAGCCCGGTTTGTATTGCAGGTACGTTGAGCTCGTCTTATTTCTACCATTATAGAGAGATATATATTGAGAGAGAGAGATGAAGGGGGTGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAGAAAAAAATGGAAGAGCGAGTAATGGAAGAGCCGGGGAGAAGCAACTAAGGATGGGTTGAGGGGGATCTGAAAAGAGTTTTCAAAGCTCTCTTGGGATTGCAGTGTAGTGATCTTAAACGCAATCCAGAAATTTCCCCAGGTTGTAAGGTAAAAAGGAAACTTCTCCCTCCCTAGTCTGGATTTGGACTTTCTGTTCGTTTGATCGAAAGCGTCTAGGGCTTTGTGAACACAAGAGTGCCGTCTTAGTTGAGAATTCTTGTTAAACTCTTCTTTAGCGTGGCGCTTTGCTCCAGAATCAGACGCTCGCCGCCAAACTTGTCCCCTCCTGTAGAGTAGGAGGCAGCCGGGCGCCGGGGCAGCTGGGGGTGCAGGGTAAGTTGGTGGCAGTGTGCAGCAGCTAGAGATGGGGAGCAGTGGGGCGTCTGGAGGCTACCAGGGGACTAATACACATTTCTTTCCTCCCTCCCCCACCGGCCCTTTGCCCACTACCCCTCCCCCACCCTTCTTCTCTGCTCCGGTCTCAG
Seq C2 exon
GAAGAACCGAGGTTGGGATCCACTCCTCTGGCCATGCTTGCTGCTACCTGTAATAAGATCGGCAGCCCCAGCCCGTCTCCCTCCTCCCTGTCGGACAGCTCTTCTTCCTTCGGTAAAGGCTTCCACCCTTGGAAACGCTCCTCGTCTTCCTCCTCCGGCAGCTGCAACGTAGTGGGTTCCAGTCTCTCTAGCTTCGGTGTGTCGGGGGCCTCCCGGAACGGCGGCTCCTCCTCAGCCGCAGCGGCGGCAGCGGCGGCAGCAGCGGCGGCCGCAGCCCTGGTGTCCGACTCTTTTAGCTGCGGAGGCTCGCCCGGCTCCAGCGCCTTCTCTCTCACCTCCAGCAGCGCCGCCGCAGCGGCAGCAGCTGCGGCGGCTGCCGCTTCCAGCTCGCCCTTTGCCAACGACTACTCTGTGTTCCAGGCTCCGGGCGTCTCGGGGGGCAGCGGCGGCGGCGGCGGGGGAGGCGGCGGCGGTTCCGGAGCGCACTCGCAGGATAGCTCCCATCAGCCAGTGTTTATCTCCAAGGTGCACACGTCGGTGGACGGACTGCAGGGTATCTACCCGCGCGTGGGAATGGCGCACCCGTATGAGTCCTGGTTCAAGCCTTCGCACCCGGGCCTTGGCGCCGCGGCCGACGTGGGCTCCGCGGGCGCCTCCAGCTGGTGGGATGTGGGCGCGGGCTGGATCGACGTGCAGAACCCCAATGGGGCGGCAGCGCTGCCCGGCTCGCTGCACCCGGCGGCCGGGGGCCTTCAGACGTCGCTGCATTCACCGCTGGGAGGCTACAACTCGGATTATTCCGGCCTGAGCCACTCCGCATTCAGTAGCGGTGCCTCGTCGCACCTGCTCAGCCCTGCAGGACAGCACCTCATGGACGGTTTCAAGCCGGTATTGCCCGGCTCTTACCCCGATTCCGCCCCGTCGCCGCTGGCCGGCGCGGGCAGCTCCATGCTGAGCGCGGGGCCCGCGGCGCAGTTAGGGGGGTCCCCACGCTCGTCCGCTCGCCGCTACTCCGGCCGCGCCACTTGCGACTGCCCCAACTGCCAGGAGGCTGAGCGGCTGGGCCCAGCGGGAGCGAGCCTGCGTCGCAAAGGGCTGCATAGCTGCCACATCCCGGGCTGCGGCAAGGTGTACGGCAAGACGTCGCACCTGAAGGCGCACCTGCGTTGGCACACCGGCGAGCGGCCGTTCGTGTGCAATTGGCTGTTCTGCGGTAAGCGCTTTACGCGCTCCGACGAGCTGCAGCGGCACCTGCGGACCCACACGGGCGAGAAGCGCTTCGCCTGCCCGGTGTGCAACAAACGCTTCATGCGCAGCGACCACCTGAGCAAGCACGTGAAGACACACAGTGGTGGCGGCGGCTCGGCGGGCTCCGGCGGCGGCAAGAAAGGCAGCGACACCGACAGCGAGCACAGCGCGGCGGGAAGCCCTCCTTGCCACTCCCCTGAGCTGTTGCAGCCTCCAGAGCCGGGCCACCGCAACGGCCTGGAGTGACTGTCGCGATGCCTCCCACCTGAATCCCGTCGGGCTTGTGTACCTAGACTGGGCTCCAGTCTAGGCTAGCTGTGCGTTCTTTCCCCCAACTTCTCATTCTCTCTCTCACCGGTTTTCTGCTCTTAACTTTTAGGATGTGGACAGTAAGTAGCACACATCGGTGGCTGAATCCTTGGCTCCCTTCTGCACAGTGACAGCCATGCGGGGCGCAGTGGAAACCCGCTCCTCCAGCACTGGGCTGGCGGAACTTTGAAGAGGCTGTGGCCTCTGGGGTTAGGACGGGATGAATGGGTTGTCTGGTAGAACAGTGGCTTTTGTGGCCTTGGAAAGAACAGTGTTCAACCCGCTTGAGCCGCAGCTGTAGGGAGAGGGATGTAGGAGTCCTGCCAAGGAATCCCCTCCTGGACCCCCGAGTGCTCCCCTTGGACTGTCCTGTGCTGAGCATTACACTCGTGGGAGGACTGCTGCAACCCAGACCGGGTTAGCAGAGTTTAGATCTCCCCATTCAGCTCTGGCTAGGTCTTTGTGCCCTGCGGGTGAACCGATGAGAGTTCTGCGAACGGGAATCAATGCCTCCCCCTCCTTTCTTCTTTGTAACTTTTTATTTTTTAACTGAAAAACTGAGAGGAAAAAAATAAACAAGCAATCTTCCTCTTAGCTTCTCGTTTAGATAGTTTTCCTCTGCTTGCGAGCACGTTTCTCTCCAAACTGCAAATATTGATCCCAAAGTTATTTTGGTCGCCGTAATTTATGGGGTGGGGGCGGGAGTGAGGGTAGGTGTCTTTTCTTATGCAAAAATACCCCCTTTCCGGTGAGACCAGATTAAGTATCTTCGTGTTTGTCTTTTTCTACCTCGGTTTTTTCACCATCCCCAAGCATATTCTTCCAACTTCCCACATCACCACCACTTTTGGGTTAGTCTAGGAATCAATTTATCTACTGATTTCTGTAAATTATTGCAAGTCATTGATTAATTTTAGGGTTAAACTTTTTCTTTGTGATTTAAACTTAAGTGAAGAAGCTATCGTTTATTTCAGATGAGGCTGTAGTTTAAATGCCAAAAGAGGGAAACGGGGAAACAATTTTTAAAAATTCTTTGTAAAATATATCTGAACCTAATGGTTTGTACAACTGGAAAATCGTTCTAGATTAGTTTCCCATTAAACTTGACTCCGCCGCTGTGAGGTGTGAGACGATTTTGTATAGTATTTTTCTTGTACATTACTTCCGGTAAATATTTGAAAATATATTGAAGTAAACTTGATTTTTTTTCTTTTTCGTCAGAAGGAATTATTAAGAGTTATTGCTGAGGTTCTAATGAGCTGCAGGTGTTTTTTTTTTTTTTTTTTTTTTCCTTTTTCTTTTTTCCTTGAACTCAATTCTGGAGGTGCAGAGCCACACACGCACTTTCCGGGCCTAGTTTTGCTCGAATATGAATTTAGATAGGTATCAAGCTGTAACTAAGACACTATTTGATAAATGTTGGATGACATTTAATTTAATGGCGCATGTACTTATTTGCATTTGCTGGCAGTTCAGGTATAGTTAAAGTGAGAGTTCTCCTATACTTCATAATAACGGGGTCTGCCAAACCCATGTATTAAATAAATTGTCCAAGTGATACTCGACTAACTTTGGCCTTTGTGTATTTCCTGAAGGTGATATTGTTAACTGTTGACAAATACTCCTGACACTACATTTAAGTGTTGTTTGCAGAGTCTGCAAACTAACTATTCATTGTCATGTTGAAATAATTTGGATATTTCACATTGAAATGAAAAGCCTTTCTCTGGAACATTAGACTTGCATTTTAAATGCATGAAATGTAATTGATTTATTTGTAATATTTTAAATGGTATTAATAAACTCAAAAAAGACTAGGTCAGTTAATTTGGTGTTTTTCCCCCCCTTTTAAAACTACGGGCATTTGCATTTTATCTTCCGTTTTAATGTCTAATTTAAACAAAATATGACCCTGTTTTTTGTGGCAATATTTAATTATTTGCCTTTAAGATATTATGTAGATGGAAGATCTATTTGGCAAAGCTGTTTCTTTGTTTACCAAGATAAAGATTATAGTGTCTAAGATATGTAATTAATTATTTACCATTAGATTTAGCTCAGCACCAGGATTTATTGACCTCTTAAAACTTGTAGTAATTCACAAACAATTCAAAGAAATTCCATGTTGCTGCTTCCTTCTCAGTCTTCAGAAGGAGTCAGGTTGTTGGCCTTTGATCGAGTTTAGTGTTTGAAAGGCCAAGACTTAGATGAAAGATCAATACATCTAAAATAAAAGCATCATTTGGGGATACCTTCTGTTAGGAGACAGAGGGGGTCAAGCTAACAAAAGCTTGTTTTCTGGCACTCTATGTCTTAGCTAAACATTCTGCAGAGGTAAATATCAGTAGATTCCTGTTGAAATGAGTTATCTGTTCTTTAAAAGTCTCTAAACAGCCACCAAAGAAAAGAAAGGTTAAACCTTAATCTATCTACGAGGCTATTGTTCAAAGGTGTCAATGATGCCAATAAAAAAACATTGTCTTGTTATGTCTAAGTGCATTTAAGCAATGGGTGTTCCTTGAGCCATACTTTGAAACATAGTATACTTTAAATGTTGATTGATGTTATATCAAACTATTTCACTATTAGATTAATATTATTTTGAATCAAACTTAATAAAAAGTTAGTGTGTTGAGATTCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048562:ENSMUST00000063918:2
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:
PF134651=zf-H2C2_2=WD(100=5.7),PF134651=zf-H2C2_2=WD(100=4.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAACTGAGCATAGCCCCT
R:
CTCCGCAGCTAAAAGAGTCGG
Band lengths:
357-1081
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