MmuINT0179170 @ mm9
Intron Retention
Gene
ENSMUSG00000024276 | Zfp397
Description
zinc finger protein 397 [Source:MGI Symbol;Acc:MGI:1916506]
Coordinates
chr18:24113189-24115354:+
Coord C1 exon
chr18:24113189-24113362
Coord A exon
chr18:24113363-24114839
Coord C2 exon
chr18:24114840-24115354
Length
1477 bp
Sequences
Splice sites
5' ss Seq
AGGGTGCGT
5' ss Score
7.22
3' ss Seq
AATGCTTTCATGTATTGTAGGAA
3' ss Score
9.66
Exon sequences
Seq C1 exon
AGGCCTTTGTGGCTAATGTCCGCTACTCGGGCTGCTCCTCCGCTGTAGCTGGGGCTCCGTCCGGCGGGGAGCCCTGCGGCAGATCCCGAAGTCGCCGCTGTCAGCTGGAGAGCCCCGTGGAGCCCCCTCGGGCACGCGCCTACGCTGTGCTTTAACCCGGAAGCTAAAAATAGG
Seq A exon
GTGCGTGCGGCGAGCCGCGAGGAAGGCAGGTGTGGAGCTGGTGTCTCGCTAGCGGGCGCACGGAGCTGTGGTGTCGCCGCTCGGGGTCCTTCCCCATGGGACTGAGGGAGAGGGAGAGAGCGGACCCGGCGACTGAGAAGCGCAGAGGTGGTCAGCGTCTGGGTGAGAGCCGCGGGAACGCCGCCTGGGCCGCCCCAGGCAGTACGGGGGCCAGGAGGTCCGGCGTGGCGAGGACGCAGGCTTAGTTAATGTGACCTAGATGGTTGTAGGGGAAGCAAGGCGTCCGGACTTGAGGCTGCTTGACAGGGCTCAGGTTTCTCAGGTAGGGGAGTGGGGCTGGGTGAGTGTGTAACCTGGGAGACAAGACGTTATTAGTACTGTCTCGCGCTGGCGGGTGGTGGGGAGGGCTCTCTCTACTCAGCCTTGTGAGCTCAGGGCCCGGGTTTAACAGAAATTGAAGGAGCATACACATCTCTGTATACATCAGATCGTGTTTGTTCCTCATCTCCAAATCTAGTAAATGGTTACTACCATATTTCGTTTGAATTTAGAAGACTCACGCTTTTGAGAGCTGAAGTTGACTTTTTGCGTCCATTGTATCATGTTTTTAATCCAAGCTAAGCATTTCAGAGTTACAGAATTCCTCACTAAATTCATTCGTAAGCCAATCCTTTTATTAATACTGGCTCAGAACAAAGCCCACACAAACTAAGGGCCTCCATGTTTGCTGAATATTTCAGTATATGAATGGGACCAATTGGCAAATACACAAAATTTTAAACAAATTTATGTTCAGTGCAGATTTTAAAATGTTACTACCTTAAATGCACACCAGCACTACATGCTATAAACAGTAACTAAAGAAAAAAAAAATTAGAGCTTGCATTAAGTTCTGCCAAAAGCAGGGTTTGGTGCTGCATGCCTTTAGTCAAAGAACTGCAGGGGCAGGAAAGCTCTGAGCTCAAGGTCAGCCTACACTACATAGCAGGTTCCAGGACTACATAGAGGCCCTGTCTTAAAAACAAACAGGAACAATCTGCAGCCTGTATTTTATTAAAATTTTCTGTGATTGGGGATGCGGCCCCGTGGTAGAATGCCTGTCTAGCATGAACCTGAGTTCACTGTCAAGGAGTGGCAAAGATGTAGCTTACTAGCAAAGTAAAAGTGTTACCTATCATTCCTAAGACCCTGAGTTCGTTCCCAGCACTGAGAAAAGTTCCCGTTTACAGAGTTAGGAATTTAATGAGGACTGAAAGATAACTGAAAAGGAGATAATCTCACCATGTAATCATGTTAATATTGCATTCTTACACTTCTAAAATTTTTTCTCTCAGTGGTAGGAGTTTGATATAGTAGGAGATATGACTGTTAGTACTTCATCAATATATTTAGTCTTGAACGTACTTACTTTCAATGTTACAAGTTTTTAGAGGCTTTTTTCCTATGCTGTAAGTTACAATGCTTTCATGTATTGTAG
Seq C2 exon
GAAAGAAGAGGTTACACCTGGGCCCCGAGAGGCTCTGGAAACTCCTCCCCAAGCACAAAACCCAACTGTACTAAGCTTTTTGTGAGCTATTTCAGCCCAGAATGGCTGTGGAATCCAGAGCAATTTCAACTTTAAAACCTCAGGACCATCAAGAAGAATTAATACTAGTGAAAATAGAAGATAGTAGCTTTTCTTGGAGTCAGAAATGTAAACAGAATGGGAGTGCCCAATCTTGCCAAGAATTATTTCGCCAGCAATTCAGGAAGTTTTGCTATCATGAAACACCTGGGCCCCGAGAGGCTCTGGGGCGACTCCAGGAACTTTGCCATCAGTGGCTAATGCCAGAGTTGCACACAAAGGAGCAGATCCTAGAACTGTTAGTGCTGGAGCAGTTCCTGAGCATCCTACCTGAAGAGCTGAAGATATGGGTTCAACAACATGGTCCAAAAAGTGGTGAGGAAGCTGTGACTCTACTGGAGGATTTGGAGAAAGAGTTTGATGATCCGGGGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024276-Zfp397:NM_027007:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.130
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0202312=SCAN=PU(97.9=68.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCTTTAACCCGGAAGCT
R:
CAAAGTTCCTGGAGTCGCCC
Band lengths:
355-1832
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: