MmuINT0150762 @ mm9
Intron Retention
Gene
ENSMUSG00000075304 | Sp5
Description
trans-acting transcription factor 5 [Source:MGI Symbol;Acc:MGI:1927715]
Coordinates
chr2:70312980-70315783:+
Coord C1 exon
chr2:70312980-70313373
Coord A exon
chr2:70313374-70314080
Coord C2 exon
chr2:70314081-70315783
Length
707 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
CCTCGCCGCCGCCCATGCAGGAC
3' ss Score
7.71
Exon sequences
Seq C1 exon
AATCAGTTCTTTTATCCAGACCAACAAACACACCATAGGAGCTTTGTGGATTCAAAGGATTTGCTTTCGCTTCTGAAAGAGCCGCTATTCTTTGATGATTGGGTAGCGGCAAACTTCAAAGCCATAAATCTTTCCTCTGACTGGCTGGCGGCCCAGCAAAGCCCTTATCAAATTCTTGGAGGTGATCCTGAAGCGCTCAGACCGCGAGCCGGGCGAGCAAGCGGGGCGCGGGAGGGGAGGACTCGGAGGCACGCTGGGCGGCCGTTCGTCCTCGCCTTCGGGTGTCCATGCCTCGGCGGCGGCCGCGTCCTGCTCCACAGCGAGCGGCCTTCAAGCAGTAGCCATGGCCGCTGTGGCCGTCCTCCGGAACGACTCACTGCAGGCCTTCCTCCAG
Seq A exon
GTCAGGGCCGGGCCCAGAGCGGGCGGGAGCAGGTGGGAATGGCGTAGTCGGGTCTAGGCGGGTACTTTGAGCACCTTAAATCTCAAAGGGACGCTCCCGCTTAAGGGTGCGAGTCAGACCTAGGCGCACTCAGGCCAACTTGACACCTAATCTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGTGTGTGTGTGTGTGTTGTCTTTCGGGAGTATGTGGATGTCAGAATGGCAGGAAATTGAGTTCACCTTGCTGGGCTCTCCTGTTGACTTCAGCCTAGGACGGGCTAAGGAGGAACGCAGTAGCTACTTGAAAAAGAGCTTATAAAATATTAGCGTAGACGACCCCACAGCCCCATTGTGGGTGTTTCTAGTTATTCCTAACCGACTCCGGTCCCTCTGCCTCTTTTGCACCTCCCTTAAAGAATACTTGGCATCTCTTTGAACCAAGTAGTTTAGCGGGAAGCGGCCACGCAGCAGGGGTTCAGGTAGCACTGGCTCTCAAAGTTTCCCGGGACCGCTGGGTGCGCACGCGGGATGCTGTGAGGTCTGGGGGAGGGACAGCGGGGCAGAGGAGGGGCGGGGGTATAATAGTGGGGGTGGCGGCCCTGCCCAGAGTCCGCGCTTGAAACGCTAACCTTTTGTCTCTTCCGCCCTCCCTCGCCGCCGCCCATGCAG
Seq C2 exon
GACCGCACCCCCAGCGCCTCCCCGGACCTGGGCAAGCACTCGCCCCTGGCGCTGCTGGCCGCCACCTGTAGCCGGATCGGCCAGCCCGGCGCTGCGGCGGCACCCGACTTCCTTCAGGTGCCCTATGACCCAGCGCTGGGTTCACCCTCCAGACTTTTCCACCCTTGGACTGCCGACATGCCCGCGCACTCGCCAGGCGCCCTGCCGCCCCCACACCCCAGCCTGGGGCTGACGCCGCAGAAAACACACCTGCAGCCGTCCTTCGGGGCAGCCCACGAGCTCCCGCTCACGCCCCCCGCGGATCCGTCGTACCCTTACGAGTTCTCGCCGGTCAAGATGCTGCCCTCGAGCATGGCTGCTCTGCCTGCCAGCTGCGCGCCCGCCTACGTGCCCTACGCCGCGCAGGCCGCGTTGCCCCCGGGCTACTCCAACCTGCTGCCCCCGCCGCCGCCACCGCCTCCACCGCCCACCTGCCGCCAGTTATCCCCCGCCCCGGCTCCGGACGACCTCCCCTGGTGGAGCATCCCGCAATCGGGCGCGGGGCCGGGGAGCTCCGGGGTTCCAGGGACCAGCCTCTCCAGCGCCTGTGCCGGACCTCCCCACGCTCCCCGCTTCCCTGCCTCAGCCGCCGCTGCTGCAGCGGCGGCTGCTGCCCTGCAACGGGGTCTAGTGTTGGGCCCGTCGGACTTTGCACAGTACCAGAGCCAGATCGCCGCGCTGCTGCAGACCAAGGCCCCCCTGGCGGCCACGGCCAGGAGGTGCCGCCGCTGCCGCTGCCCCAACTGCCAGGCGGCTGGCGGTGCCCCCGAGGCGGAACCGGGCAAAAAGAAGCAACACGTGTGCCACGTGCCAGGCTGTGGCAAGGTGTACGGCAAAACGTCGCACCTGAAGGCGCACCTGCGCTGGCACACGGGCGAGCGGCCCTTCGTGTGCAACTGGCTCTTCTGCGGCAAGAGCTTCACGCGCTCGGACGAGCTGCAGCGGCACCTGCGGACTCACACGGGCGAGAAGCGCTTCGCTTGTCCCGAGTGCGGCAAACGCTTCATGCGAAGCGATCACCTCGCCAAGCACGTGAAGACGCACCAAAATAAGAAGCTCAAAGTCGCTGAGGCCGGGGTGAAGCGGGAGAATCCGCGGGACCTATGAGCGCACCGGGACACTTTCGAGGCCACTCCTGCCCAAGACATCTTTCCCAGCACCTTTGCTGGCACACCAGGGTACTTGCCATCGAGGTAGCTGACAAAGAGTAACTTTTTAAATGAACTTTTTATTCTCCTCCGCCCGAAGTCTTGCTGTCCAGCCCAAGAGCAGAGGGCAGGGCAGGCAGGACAGGAAACTGGGTCGTAGTTGAGTTACCCCAGGAGGATTCCAAAGTCCGAGCCATCGCCTGCCTGGGAGACTTACATTTTACCCAGGGCTGGCCTTGCTTGTGGGAGTCGCTGCTGAAAAAAAATTTTAAAAAGAAGGCTCTTGGGAGATTTAAAAACAAGGCCTAAGTTTTTGCTAGGCCCGATTCGGACTTTGTACAGGTTATTTAATAATAGCTTTGTTAAAGAGTAATTATGATTATAACGTTAATAAATGTTTCTGTTGTTCTCAGCTCCACGCAGAGCTACAGCATGGTACGTTTCTGTAAAGCGAACAGCAGTTGGCAGCGTGAAAATAAATACTTCATTCCAGGGTCTCCTCGGGAAGACCCCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075304-Sp5:NM_022435:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.176 A=NA C2=0.396
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=7.3),PF134651=zf-H2C2_2=WD(100=6.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCAGGCCTTCCTCCAG
R:
CATCTTGACCGGCGAGAACTC
Band lengths:
358-1065
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: