MmuINT0178586 @ mm9
Intron Retention
Gene
ENSMUSG00000037007 | Zfp113
Description
zinc finger protein 113 [Source:MGI Symbol;Acc:MGI:1929116]
Coordinates
chr5:138592433-138594197:-
Coord C1 exon
chr5:138594073-138594197
Coord A exon
chr5:138592525-138594072
Coord C2 exon
chr5:138592433-138592524
Length
1548 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
GCCCTGGTATTGTCCTTCAGCTC
3' ss Score
8.04
Exon sequences
Seq C1 exon
TCCTTCAAAACCTGCTGCTTGCTGAGTCTACAGCTAGCCGACCAGTGACCAGAGCATTTCCCCCTCGCCCATGGAAACCCAGGCAGACCATGCATCTCAGGCACCTCTGCCCCTGTTAGAGAGCG
Seq A exon
GTAAGGCATGGGACTGGGCTCGGGGGCATTCTCATCTCTTCCCGTTGTTTACTTGTTTGTGTTTTGTTTTCCTTTGAGCCAGGGTCTCACTTTGTTGCCATGGCTGGCCAGAGACTCATTATGTACACTAGGATGATCTGAATGTCAAAGAGATCTGCCTGCTGTGTTTCCTGAGTGCTAGGATTAAAGGTGTGGGCCAGCACACTTGGTTTGCTTGTTTGAGTTTTGAGACAGAGGCTCACTATATAGCCCAGGCTGGCCTTGAATTTTCTAGGTCCTTGACTTGTGCCTGGAGTGTTAGGCTTAAACTGATGCGTTTTATTACATTTTCATACTTTTTTTTTTTTTAGCATTAAAAGGTTGTGGGGTTGGAGTGATGGCTTGCTGGGTAAAAGGTCTTGCCACAGAAGCTTGAGGGCATGAGCTTGCATCCCCAGAACCTACATTAAAGTCGGACATTTAGTAAGAATGTCATCCGAGCATTCCTGTGGGGAGATGGGAGCTACAGATAGGAGGATTCTCAGAAGTTCATAGGCCAGCTAGCATGGAATACATAGCAGGAAACCCACAAAGATCTCCTGTCTCAAATAAAGTAGAAGGCAAGGACTGACACCCGAGATTGTCCTCTGACCTCCACATGGCATGTATGCATCCACACTCACACAGAGAAAAAAATTCCCCAAACATTAGAGAGTTTTGTGGGAGATAGGACTTACTAGGTATGGGACCCAGGGCCATACATGAGCTAGGTGTTAAGCTCTTAGCTCTGAGCTACAGCCTCAGGGTTCAATTGTAATGTCTGTGGATCCTATGTTTCCTAGGAAAAAGCTCTTAAAGCCCCTTTCATTTTTCTTTTTTCTTTTTTTTTTTTTTTTTTTTCGTTTCTTCTTTTGAGACAGGGCTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGATCAGGCTGCCCTTGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGCTCGCCACCACGGCCCGGCTCTTAGAGTCCTTTTCATCAGATCTGGTTATATGTAGTGGGTTAGACCCTAAGAGACAAACACCAAACTTATGGCTGATGAAGGAAGATGTGTGATCAAGTTCAGAGCTAGGAACTATTTCTGTTGTATAGATAAAAATTGGTCTGCAGATGAAAACAGAGGTGTGGGTGTTGTGTGTTCTGTCAGAGCCTGAGGGAAGCTGCTCACGTTTCTTTGCTTAAGAATCCCATAAAAGACTTTGCAGTGATGGAAGGGAAATGACAATATAACTGGTTCCTGGCCCAGGGTGAAGAAAGGGCATGAATAGTCACAGGAGCCGTTAGTTGGAGTTCAGTGGTAGAACACTTGCTTGCATGCACAAAGCTGTGGGTTTGATCCCTAGACCCACCAAGAATTTAAAAAAAGAAAACAATATGGCACTCATGAAAGGAAAGACTGGGTGGTTTGGTGGATTTTTGAGACATGTGACCATGGGTCCGAAAGCAGGTAGATTGATTCCTAGCCCTGGTATTGTCCTTCAG
Seq C2 exon
CTCTTTCTTCTTCAAAAGTCCCTTCCTTTCCTGACAAGGACAGTCTGGGGGACAAGATGTTGGCTGCTGCGCTTCTAAAGGCCAAGTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037007-Zfp113:NM_019747:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.647 A=NA C2=0.165
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCAAAACCTGCTGCTTGC
R:
TGAGACTTGGCCTTTAGAAGCG
Band lengths:
215-1763
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: