MmuINT0135997 @ mm9
Intron Retention
Gene
ENSMUSG00000028274 | Rngtt
Description
RNA guanylyltransferase and 5'-phosphatase [Source:MGI Symbol;Acc:MGI:1329041]
Coordinates
chr4:33416495-33418057:+
Coord C1 exon
chr4:33416495-33416570
Coord A exon
chr4:33416571-33417816
Coord C2 exon
chr4:33417817-33418057
Length
1246 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAT
5' ss Score
7.3
3' ss Seq
AAAATGATTGTTTTCCATAGTAT
3' ss Score
5.63
Exon sequences
Seq C1 exon
GTGTTCACTGCACCCATGGCTTCAACCGTACTGGTTTCCTTATATGTGCCTTTTTGGTGGAAAAAATGGATTGGAG
Seq A exon
GTATATTATATAGTATTATTATAGTGGAAGAAGATGCATGTAACAATTGCTGATGCTTATAAACCCTATAGCTGATGTTTTCACTTTTCCATGCTTTTCTTGTATTTTGGAATCATCAGAGATTGGATCTTCCAATGTTTGGATTTATATTCAGCTTTGGAAACATCTGTTGTTTTCCTTTAAAATTTGTCTTTTCTAGCTGTTCAGAACTAGGGAAAGCTTTAATGCTCTATGAAGGAAGCATTAATCTGTTTAAATAAGTCTTGTCTTTATTGAGCATGCCATTTGTGGATTATATTTTCAGATTTTGAAGGATTATTAGATTCTCAATTACTTGAAATTTCTATGAGAGTAGGATACTGCTAACAGAATTTTCTTACTCCCACTCTAGGTTCATTGTTTATGTTTCTAAAACCTTTTACCCATTAGGTCCTTTTTTGGAATGCAGTCAGGCAAACACACATCTGATTGTGTTCTTTCTGATATACTCAGTGGGTATTTACTTTGTGTAGTTTTCAGCTTTGGCCTTTCAGAGTACTGTGCACAGTAGCATCAGTCTTGGCTAGTGGTTAGTGCTCTTGCAAGATGTGTACTCTTGGTGCCTTGGTCTGTTGGTGGTTCCTGATAAACCATTGTGTTAACTTGCTGTTTACATTTTCTTGACCCAAGTTTTCTTTTGGAGACCTTAACCTTCAATATTTTATTAAAATTCCTTTCATTGGCTATCCATGTCCGTTGTAAGCACTCATGGCAATGGTCTTTAGACATTATAGTATACCATATATTAGAATGTACCCTGTACGCCGGGTGTGGTGGCGCACACCTTTAATCCCAGCGCTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTCGAGGCCAGCCTGGTCTATGAGTTCCAGGACAGCCAGAGCTACACAGAGAAACCATGTCTCGAAAAAACCAAAAAAACAAAAAAAAACAAAAAAACAAAACCCCAAAAAGAATGTACCATGTGTTATACTGGACTATATATTATAGTGGGCCATGTAGTGTAGTGGGTGATATATGCGTAACATATGTTACAACTTACCATGGGCATGTGTTTGTAGAATCAGTTTATCATTGATTGAAAGTTTTGCAGGTGAAGAAAGACTTTGATTTGTCTGTTTTATAAGCCAGTTATACTTCTTGGGGTACCTTGAGTATGAGTTAATAATTGATAAGTCTACATAAATGGACGCTAGTGAGAAAATGATTGTTTTCCATAG
Seq C2 exon
TATTGAAGCAGCAGTTGCTACATTTGCCCAAGCCAGACCACCAGGAATCTACAAGGGTGATTATTTGAAGGAACTTTTTCGTCGCTATGGAGATATAGAAGAAGCACCACCACCACCTGTATTGCCAGATTGGTGTTTTGAAGATGAGGATGAAGAAGATGAGGATGAAGATGGAAAAAAGGACTCAGAACCAGGGTCAAGTGCATCCTTTAGTAAAAGGAGAAAAGAGCGGTTAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028274-Rngtt:NM_011884:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.395
Domain overlap (PFAM):
C1:
PF0078215=DSPc=FE(18.7=100)
A:
NA
C2:
PF0078215=DSPc=PD(23.1=38.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCACTGCACCCATGGCTTC
R:
CAGTTTTAACCGCTCTTTTCTCCT
Band lengths:
315-1561
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: