MmuINT0135882 @ mm9
Intron Retention
Gene
ENSMUSG00000029474 | Rnf34
Description
ring finger protein 34 [Source:MGI Symbol;Acc:MGI:2153340]
Coordinates
chr5:123313996-123316915:+
Coord C1 exon
chr5:123313996-123314403
Coord A exon
chr5:123314404-123316810
Coord C2 exon
chr5:123316811-123316915
Length
2407 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GATCTGTCATGTATATATAGGTA
3' ss Score
6.64
Exon sequences
Seq C1 exon
CATGTCTGCTGTGACTGCAAGAAGGATTTCTGCTCCCTCTGCTCAGTCTCCCAAGAAAACCTCCGCAGATGTTCTACTTGTCACCTACTACAAGAGACGGCCTTCCAGCGCCCTCAGTTGATGCGACTAAAAGTGAAGGACCTGCGGCAGTATCTCCTCCTCAGAAACATACCAACCGACACTTGTCGTGAGAAGGAAGACTTGGTGGATCTAGTACTGTGCCACCGTGGACTAGGCTCAGGGGATGACCTGGACTCAAGTAGCCTGAATTCCTCAAGGTCCCAGACTTCTAGTTTTTTTACACAGTCCCTCTTTTCAAATTACACTCCTCCCTCTGCTACTGTGTCCTCCTTCCAGGGAGAGCTCATGGACAGAGATGGCGCCTTCAGATCAGAAGTCCTGGCACAG
Seq A exon
GTAGGGTGGTGTGATTGTTGACCCCAAGAGCCATTCTTGGCCATGTGTGGTCAGGATCTTTGAATGCTAGGTGACTGAACCTCAGGTTATATATATGCAGAGTAGGGTCCATCCCCAGCTGCTGGCATCTCACACCTGCCTGATGCTTAGGTGCTCGTGCCTGGAAGCCAGGCTGAGGTAGCTCATGAGTTTCTTGTCCTTATTAAATAACTTATAATTGTCGAAGTAATAACCAAAAGTTTCAGTGACCATAGAAATAATCAGTAGTTAACTTAGTGACTATATTTACCTTGTTGGAGGGAAATTGTTCTGATTTGGCTTTATTTATTTTGAGACAAGGTCTGTAGCTCAGGTTAGCCTTCAGGTCCCTCTATAGCTGAGGCAGTGTGTGTGTGTGGACCCACCCTTACTTGCTCAGTTTGTCCTCCATCTTCTCTTTTGAGACTGGGTCTCACTGACCTGGCTACAACAGCTGGTTTGCAAGTCCCCTGAGGTCAGGGTGTCCCATCACTGCCTCTCATGCTGGCCTTCTAAGCATGGACTTTTCATCTTCCTTTGGTGTGAGTACTGCAAATCCAAACTCATATCCTTATGCTTGTACAGCAAGGTTGTCTGCCTAACCGGGATCAACAGTGTGCATCATGCCAGGCATGGTGGCGCACACCTTTGATCCCAGCACTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCGGGGCTACACAGAGAAACCCTGTCTCGAAAAAAAAAAAAAAAAAAAAAAACCAAAAACAACAAAAAAAGTATGCATCATGATGGCCTGGTGTTAGGTAGTGCCAGGGACTGAATCAAGACTTTGTATACTAAGCCAACACTCACAACAACTAAACCATGTCTCCAGTTACAAAATGTATCTAATTCAAATAACAACAAAAAATTTGTATTAGAATACTATCCCAATAAGGTTCTTGAGTATCAGAGATGAAATTTTTTTCCCTTTGAGGAAAGTTGTTATTAAAAGTAGATATGGGCTCATTAATGGGAGCACTGGCTACTTTTCAGAGAACCTGTGCTCAATTTCCAACAACCATATGGCAGATCACAACCGTCTGTTACTTCAGGTCCAGGGGATACATCACGCTCACACAGACATACATGCAGGAAAAACACCAATGCAAATTAAAAAAAAAAAACTAGTAAGTAAATAAATGAATACACATCTTTTTAAAAAGTAGAGGTGTGCTGGGTGTAGAGGCATGACTGGGCAGGGCAGCGCACACTTAGACCCCAGCACTCAAGGGACAGAGGCTCAACTGCTATTCAAGACCAGAGTTTTATGATTTTTCTCAAATGCGAATTTGCATAATCGTATAAACAGATACACTGACTTACACTTTTGGGCATATAACACCATTTGGGGGAGATGTGGGTGGCACAGTGCTGCTCTGTGGCACCTGGTGGCTGAAAAGTGATAGTGGAAGCAACCTCGACATTGTGTCCTGTGATCAAAAGATGTCATTAAGAATGGCTGTGTAGGGGGCTGGTGAGATGGCTCAGTGGGTAAGAGCACCCGACTGCTCTTACAACCACCCATAATGAGATCTGACTCCCTCTTCTGGAGTGTCTGAAGACAGATACAGTGTACTTACATATAATAAATAAATAAATCTTTAAAAAAAAAAAAAAAAAGAATGGCTGTGTATGGGGGCTGGCGAGATGGCTCAGTGGTTAAGAGCACCGACTGCTCTTCTGAAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAACGAAATCTGATGCCCTCTTCTGGAGTATCTCAGGACAGCTACAGTGTACTTACATATAATAAATAAATAAATCTAAAAAAAAAATAAATGGCTGTGTGCACCTACAATCCCAACATTGAGAATGTGGAGACAGGAAAGAGATGAATGAGCTCATACTAGCCCAGGCTAGATCTGGTCTCAAAAGAGAAAGTATGTAAAAGATAGGGAAGGAATTTGTTTTCCTAAAGAAAATTGTTTATTAGGGATTTTTTTTGAAATACTGATTTCGTGTATGTGAATGTTTGCATGGACGTGTCCTGGTAGGCATGTCAAATTCATGTGTGCTCTAGCATGTCTGTGGAGTTCAGAAGGGGGCATTGTGTGTGTCCTCCTAGATTGGAGTTAAAGATGGCTGTGATCTGCCACGTAGGTGCTGGGAACTGAACCTAGGGCGTCTGCCAGAGCAGTAAGTTGCCCTAACTGCTGAGCCATCTCTCCAGCCCTAGTTATTCTTTTATTTATTTTTTTTAAGGCATGGTCTCACTATGTGGTTGGTAATTAGAAAAACTTGATCACTAATATAATTGGATCTGTCATGTATATATAG
Seq C2 exon
GTACAAAGTGAAATAGCTTCAGCAAACACAGATGATGATGACGACGACGATGATGATGACGACGATGATGAAGATGACGACGACGAACAAGAGGAGGAGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029474-Rnf34:NM_030564:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.088 A=NA C2=0.914
Domain overlap (PFAM):
C1:
PF045468=Sigma70_ner=PU(24.4=16.2)
A:
NA
C2:
PF045468=Sigma70_ner=FE(37.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: