MmuINT0179173 @ mm10
Intron Retention
Gene
ENSMUSG00000062519 | Zfp398
Description
zinc finger protein 398 [Source:MGI Symbol;Acc:MGI:1917856]
Coordinates
chr6:47835664-47840647:+
Coord C1 exon
chr6:47835664-47835920
Coord A exon
chr6:47835921-47840251
Coord C2 exon
chr6:47840252-47840647
Length
4331 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
CATTTTTCCATTGCACATAGACT
3' ss Score
5.7
Exon sequences
Seq C1 exon
TGCAGTACTCGCTGCCCACAAAGCGCCAGCTGAGGGGCGGCTGCAGCCGGTGCGGCGTAGGCTGCTCGCTACTCAGCTCCTCTGCGTCCCAGCGCCCCCGGAAGCCCGATTGCCGCGCGAGTCCTGTCAGAGCGAGCAACGCGAGACCGCTTCTCGCCGTCTGCCGAGAGCACTGAGCAGCCGGGCCTGCGTGTGGTGGCGACTCCCGGGACAGGACCGGGCAGCGGAGGGCCATGGCTGAGGCGACCGCCGCTCCG
Seq A exon
GTAAGGGCGCTGATGGACGGGCGTCTCTGTCACCCGGGCCTCGGGGGAGGCGAGGGAGCTGGGGACGGCAGCGGGCCTTGTGGCCCGCGTGGGTCTGCGGCTGTCGTTTGCCCCGCAAGGCCACCGCGGACCGCAGCGCCGGGCGACGCCGCGGGACCAGGGTCTGCAGTTTCTAACCTACACGCGCCGCGGTGCTCCGCGTCAGCCCGCGGAACGGGGAAGTGGGCTCGAGGTGTTTTTGCAATCCACCAGCCATTCTGTACAGCCGCGAGAGCTGTCGTTGCTAGGTGCGGCAGGACAGTCACCTGCGTGGCGGGGAAGGTAAAAGCCAAGGTGTGTCCTTATGGACTGCGTGAGGACAGACAGCCTCGCGCGCCCGGGAGGGCAGGCTGTGGCGCCGCGGGGACCTTGGAAGGCCGACCGAGCGCAGGCTTAGCCAGTAGTGCAGTCGTGCGTGTGCTTGTTTGCTGCAGGCCTGCAGTGGGCCCAGCCGTGCATGCACCAGAGATGCCAGGGCTACCAGGACAACCCGCACAGTCCCTGCACACAGCCATTAAGGAAGAGGGGATGGTCGTTTAACAGAACGTTCTGATTGGAAAGTATTGCTTTTGTTTGCCACCTAAGAAGGCTTTGGTCAGCTCAAAGAGACTTTTTAAATAAGTCAGAAGTCAGGCAGGTCTGCAGAGGAGTAGATAGGAAGTAAAAAAGAAAGAAGAAACCAGGGGAGCAGCGGGGAGGGGCGGGGAATGGAGTAGAGGGGAATACCCTTCAAGTTTAATTTTCCCCCAACCCTTAAAAAAGATAGTAGAGCCCATGGTGTATGCTATAGGTATATGCCATGCTGAAAACTGTCACATACTTTTAGTTCTCTAGTAGTCATGTTTAGGAGGTTAAACCATGATGGTAACATGGTGGCTCACAGAGGAGTTTAAAATAGGAGAATCAGAAATTTTAGTATATGCTTGGCCAAATAGCCAGAGTGTGTGTCTTTAAAAAAAGAAAGAAAGAAAAGAAAAAAGTAAAAAAAAAAGTAAAAAGAAAGAGGAAATTAATTTCAGTTAATTCAGTGAAATGTTATTTAGCTCAAAGTATAAAAATATTTTAATAGTAATATTATAAAACTATTAATGAGATTTTAAACACAACACATCTCAATTGAACTGAGCACATTTAAAGTCCTCAATAATCACTTGGACTCAGTGACTTTGGTACTGACCAGGGCAAGACTGTTTTATGAAGAAGAATTTGGAAATACTGATATTTTTAATTTTAATTTTAAGAAATCTTTTTAGGGGTTATGGAGAGATAGCTCAGCAGTTAAAAGTACCAGTTGCTCTTGCAGAGGGCCCCGAGTTGATTCCTAACATTCACATGGTGACTAACAGCAATCTGTAACTTTAATTCCAAAGTATCTGATGCCCTCTTCTGACCCTTGAGGGCACTGGGCATGTAGATGTTGTCACATATTTACATGAAGGCAGGATACAGATACACATAAATAAATCTAAATGATTTAAAAATATTTTTATTCTTTGAAAATTTAATAGAGTGTATTTTGACCATTTCACCCTACTGCTCCTAACTCCTCTCAGATTCACTCCTCCCTCCCTCATAGTGTCCCCAGTTTTGTGTCCTTTTTAAAAAATGATCCATGAGGTACTTCTCATATACTCCTTGGTGTAGGGCATCCACTGGAGTTTGGTTGATTTACCAGGGGCCACAACCTTAAAAATTGGGTTTTCTCTTCCCCAGAAGCTATCAGTTGTCTGTAACTCTGCAGTTATGAGTGGGAGCTCATGCCCCTGTCCCTTTCAATGCTATAGTGTTGACTTGCTTGATTTCATGCAGGCGGCCATAGCTGATAAGAGTTCATGAGTGCAGTAGTCCTGTCATGTCCCGAAGAAACTCTTTGGATCCAGTCCAACTCTGGATTTCAGAGTCTTGCTGCCCTTTTTCTTCAATGGTCACTGAGCCTTGGGATTTGGGCACTGCCTCATTTCTGTTGAGCACTTCATTGACAACTTTTTATTACTGTTGACAGTTTTTTGCTACTGCTACCACTACCACCATTACCACTACTACTACTTCTACTGGGTCTTCTTGAGACAGAGTCTCACCTATGTAACCCTAACTGACCAATGTGTAGATCAGGCTGGCTTGAACTCACAGAAGTATTTCTGCCTCTGTAAGTGCTAGAATCAAATGCATGTGCCATCGCACCAGCTGTCTTTTGTTTTGTTTTTGGTTTGCTTTTTAGTGTACTTTATAAGTTAGGAGGGCTGGTATTCAGAGTTCAAGTGGAGAGACTTGCTTTAAATAAAATGAAACATCTTTCTTTGAAAAAGAAAGAAAGCATTTTCTAATAGGCTTGATGTGGGGAGGAGTAAAAGAGTTTAGGTCTAATTATTTCAATTTCCTTTTTCTATTTCTTCTGAAGACAGGGTTTTTCTCTGTATCCCTGACTGCCCTGGAACTCTCTCTGTAGACCAGGCTGACCTTGAACTTACAGAGATCCACCTGTCTCTGCCCTCCTAGTGCTGGGAATAACAGTGTGTGCTACTACCACCTGGCCTATTTCAGTTTACTTACAGTAAGATATCATGTCATCTCTGGAGAGTAAGGGTGCTATCTGGATAAGTTTCTGCCCTCCCTGTGTGCTCCCTGAATCAGTAGATGCAGCATCCATGACCTAAGAGCTCACTTAAAGTACACCATCTCCTTTTCACATTCACCGAATGAAAATATGTATTTTAACTAGATTTGGGGAAGGGGGGGTGCGGATCAGGACTTGGGGTTAAGGTCTTGCTATCCGTAGCCCTTGCTGCCTTGGTACTCACTCTATAGCCAGACTGGACTGAAACTTAACAGCAGTTCTTCTAACTCAGTTTCCTCAGTGCAAAGGACAACTTGGGGGACTTGATTCTCTTCTTCTGACATTTGGATCTCAGAGATTGAGCTCAGATAATCAGGCTTTATTTGCTGTAAGTGCCTTTATCTGCTAAGCCACCTCACTGGCTGATTGCTCAGCTCTTTTCTAGTTATTGTTTCACATTAGTTTGAGAGTTTGTAGAAGCCTGGAAGGTACTAGATAGTGTCAAGTGCCCCCACTGAGCACTGACCATTGGTGTATGCTGACAGCATCTCACGTGGTTGTGTAATTTTCTTTTTAGGTCTACCTGACTGTAGAAGCAAACAAAATGTGAATGATTCAGCTCATTCAAATTAGAAAGTCAGCTGAGCAAGTGAGACTTAGAGACTGGAGTGACATGGGGTTGAAAGTGGCTGAAGTGGTCAAGCAGGGAAGAAAGCAAAGCCATGTACAGGTGGTAGGCCAGGAGCACATGGACTCATCATAGGGCTACAGTTATAATTAACAGGTTGGAGACCAGATGAAAAGAGAATAAGATAGTGCATGACGTGAAAATGGAAGGCTCTGGTCAGAGTGGTTTATCAGGTTCAGAGAATTAGGCTTAGTCTAACATCCTATTTGTTGTACAGATTTCTTGCTTTTATGATACTCTTTGTTTCAAAGTACATTAAACAATGAACAAACAGCCTGTGACTTTCTTGGAAAGAATCTAATTCAAACATTGTTACCAGTCTGAAATTTTCCATGTATTTTTCTAGTCTGTCCTTGGAGTATAAGATTAAACAAACCTGTTTTATCTTCTATTTCATAACCCTTGAATACTTGAAAGTAGTTGTCATATTTTCTCTAGTCTAGACACCCTTAGCTTGTTAAATTATGGTACAGTTGTAGTGTGTAAGCTGAATGATAGACAGGGCTAGCGTATCAATGTGTAGGAGATTTGTAAGAGAGCACTGAGGTCAGTGAAATCAGAGAATTCTTGTGTGCATTTGCCTTTTCCAGAGATAGAGAAGGCAATAAGCAACCTCAACTTCTGGGCCTTGTTTTAGAACAAATGGACCAGGCTAGCCTTAAGAAGCTATTATTCACTATCTTTCCTAATCCATCCTTGAACCATCACAACAGTTCCTTGGCTTTTGATATCAACAGGCTTCAGAGCAACAAGGGCGGACACAGGCACTGTAAATGCACTAAAGCTATTTTGTTTTGTGTGTGTGGTCCCCCCCTCCTACCCCCCTCCACCAACAGTTTCTTTTGTGTAGCCCTGGCTGCCCTGGAACTTGCTCCGTAGAGCAGATGACCTGGAACTCGCTGAGTTCCACCTGCCTCTGCCTCACAAATACTGGGTTAGAGGTGTGTGCCACCACTGCCTGGGAGTTAAGTAGTTCTTATTTGGTTGTAGTTTAGAGTGTGGATTCCTTCTAATTCTCAATGTCTTGCCCCATTTTTCCATTGCACATAG
Seq C2 exon
ACTTCTGAATGGGACTCGGAATGCCTTACATCCCTGCAGCCCCTTCCTCTTCCTACACCTCCAGCAGCAAATGAGGCACATCTGCAGACTGCAGCCATTTCCCTGTGGACAGTGGTGGCTGCTGTGCAGGCCATAGAGAGGAAAGTGGAGGTCCACAGCCGGCGACTCCTCCATCTAGAAGGCAGGACAGGGACAGCAGAGAAGAAACTAGCAAGCTGTGAAAAGACAGTGGCAGAGCTTGGGAACCAGCTGGATGGCAAGTGGGCCGTGCTGGGGACCTTGCTGCAGGAGTATGGGCTGCTTCAGCGGCGGTTGGAGAACTTGGAGAACTTGTTGAGAAACAGGAACTTCTGGATCCTGCGGCTGCCCCCAGGTATTAAAGGAGATATCCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000062519:ENSMUST00000079881:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.688 A=NA C2=0.106
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF124173=DUF3669=WD(100=60.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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