MmuINT0004522 @ mm10
Intron Retention
Gene
ENSMUSG00000041068 | 4930596D02Rik
Description
RIKEN cDNA 4930596D02 gene [Source:MGI Symbol;Acc:MGI:3588288]
Coordinates
chr14:35809488-35811659:-
Coord C1 exon
chr14:35811463-35811659
Coord A exon
chr14:35810270-35811462
Coord C2 exon
chr14:35809488-35810269
Length
1193 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
TTCTGTCTGATCTCCTCTAGCTA
3' ss Score
8.16
Exon sequences
Seq C1 exon
GGTGAGAATGTATCCGCCCCAGAAGATCCAAGGGAGCACTGTACACAGTCACATGTCAGTGCAGACACGTTGAAAAAGCTGGTGAACCACTTGGTGCCTTCCCTGCAGAGTGGGGACCCTTTCTTCATCCCTGCATTTCTCTCCACATACAGAAGGTTTGCCACCACCCTGCAGGTGCTAAATCTGCTGTTCAAACG
Seq A exon
GTGAGTGCCCATTTCCAAGACCAGACGTATCAGATCTTGTTTGTTCTAGGAATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGCATGCATGTGTATGCCTACTTATTGTCTAGAGAATTGTCAGGATCCAGCAGCATGAAGCATAAAACTGCTTCTCGCAGGCTTGGTCCAAGTGAGTGAGCTGCCCAGAGCTGAGACCTTAAAATGGCTATAGCTATCCCCTTTATCATGAAAAACTGCTAAATTCTTCACCTAATATTTTTGAGGCCTTGGTCAAAGCACTTCTATGTGTAAAGGATGTTCTAGAAATATTGGTGTACCCAATAGAGATGTGTCCAAGTAGAGACCCGTGAAGGATAATCCAAGGGACACTGTGACAACTGAGATATCTGGATAAAGATGTTTGTGTTCACATTTATGCAAATATATTTTTTCTCTTTTTTTCTTTCTTTTTTCTTTTTTTTTATATTTTTATGAGATATTTTCTTCATTTACTTTTCAAATGCTATCCCAAAAGTCCCCTATACCCTCCCCCCTCCCTGCTCCCCTACTCACCTACTCCCACTTCTTGGCCCTGGTGTTCCCCTGTACTGAGGCATATAAAGTTTGCAAGACCAAGGGGCCTCTCTTCCCAATGATGGCAGACTAGGCCATCTTCTGCTATATAAGGAGCTAGAGACACGAGCTCTGGGACTACTGGTTAGTTCATATTGTTCTTCCACCTGTAGGGTTGCAGACCCCTTCAGCTCCTTGGGTGCCTACTCTAGCTCCTTCATTGGGGGCCCTGTGTTCCATCCAAAAGATGACTGTGAGCATTCACTTCTGTATTTGCAAGGCATTGGCATAGCCTCACACGAGACAGCTATATCAGGGTCCTTTCAGCAAAATCTTGTTGGCATGTGCAATAGTGTCTGTTTTTGTGAAAGTGCCTACTGTGTGCAGGTGAACTAATAATTCTGAGAGCAGATAGAACTTGCAGAATTTGGACTCCATTTCTTTCTAGGAGTCACACTGGCCCCTAGATGTCTTTAAGGTGAGGAGCTTGGGACATTACAGGTGACATTCTGTCTGATCTCCTCTAG
Seq C2 exon
CTATGAATACTTCCGCCCTAATTCTGAAGAGGATGAACAAGTAAAGAACACCCTTTGTAGCTTCCTGAACACATGGATGGACAAGAACACTGAGGACTTCTGTCAGACCTCAGACCTGCTCCCTCTAAATTATCTGAAGACCTACTTGAGCATGAACATGCCAGATTCGGATCTTAATGTCCGTGTCACTAGGCTCCTGACCCAGTTGCAGAAAGAACAGGCCAACGTGTCACAGGCCAAAGATGAGGAAGACTCAGATCTGGAGAGCAACACATCCTCATACCCAGAGCTTGAAGGATATTGACTAGCAGGGAAAACAGCCATTCTGGAACCAGAACCAACTTGTGTACCAGAGCTGAAGAGCACAAAAACCACCAGAAGTTTCTGTGACCCACGTTTAGCTACAGCCAAATGTGTCAGCAGCTGTCTAGCCAGCACACCTGATAGCTGCTGTGGAACCTGTGTCTCAGCATGTCTGTAGATACAGTGTATCTTTCATGTATCACACCCTGTTAAAGTGGGTCTACCTACTTAGACAATGGCCCTGTCATCCCGTATCCCTTATTTGATTCTATCTAGACAGCTCCACTTTTCCTGCCCCACAGAATCACCCCTGATTTCAGTCCAGCAGCAATCCCAGCCCCACAACCAGCCTTCCCCTCCCCTGAGAAATAGCCTTTTTACTCTTCCTAATCTTGTCAATGGTGTGTTTAACTATTGTTTTGAATACATTGTTTGTGCTTGTTTCTCCTTGTCTAAAATAAAACCAATCTAATAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041068:ENSMUST00000043266:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.258 A=NA C2=0.277
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(49.0=72.7)
A:
NA
C2:
PF0061815=RasGEF_N=PD(50.0=48.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATCCGCCCCAGAAGATCCAA
R:
CCGAATCTGGCATGTTCATGC
Band lengths:
357-1550
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