MmuINT1002043 @ mm10
Intron Retention
Gene
ENSMUSG00000026882 | 4930568D16Rik
Description
RIKEN cDNA 4930568D16 gene [Source:MGI Symbol;Acc:MGI:1923109]
Coordinates
chr2:35354218-35355645:-
Coord C1 exon
chr2:35355508-35355645
Coord A exon
chr2:35355037-35355507
Coord C2 exon
chr2:35354218-35355036
Length
471 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGC
5' ss Score
5.06
3' ss Seq
TTTATCTTTTGTTTTTGTAGCTT
3' ss Score
9.67
Exon sequences
Seq C1 exon
AAAACGTCCTGATGTTATAGCAACAACTGGTTGGCTCGCTCCAGTCTTATGGGAAGGAACTTACAACAGAGAAGTTCTAGAACAATATTATAAGAGACTGAACATTACCATAGGCTTGGCTGTCTTCGCTACTGGAAA
Seq A exon
GTATGCACTGCTGGTAGTTGTCCCTTATATTTTGTAGAAATAAGGATGCGCAGCCATGGACTGTCTCTAACCAAAGTACTACTTACTAATGAGTCTGTCATTACTTCTTTCTGCCCTGTGTAGCTATGGATAGCGGTTGTTCATTTGTTTTAGTTTAGTTTAGTTTAGTTTAGTTTAGTTTTGTTTTGTTTTGTTTTATCCAGCAATAGCTGAATGTTAGAACTTGTGCAAACATTTTCATTACTGTTCATTAAACTCTCTTTCCTTTTCTTCCTAACAAACTTTATGTCTTTTCTCAGGCCCCCAAGCTTACCAGATTATCTTTTACTAACCAATACAGCTGAAGGTACAGACCCAGCCAGGCTATCTTTATCTTCTTAGACACCAATGTCTTGTATGTTAATTGGCATGCTAAGTGGCACACACCTGCTGGGAATTAGTGAAGTGTTTGTTTATCTTTTGTTTTTGTAG
Seq C2 exon
CTTTTCAAAAGAGCCCCTGAGACGCTTCATAAAGTCTGCTGATAAGTACTTCATGGTGGGCTACAATGTTATTTTCTACATATTGGCTGACAGCACGTACAATCTACCATACTTTGAGTTGGGTCCTCTTCGGACACTTAAAACATGGAGGCTATTTGAGGAAGAGATGTGTCAAGACTGTAATCTCAGAAACATGAATAACATGCATAGCAAAATCATACAGTGTATACAATATGAAGTCAACTTTCTCTTCATGATGGCTGTGAACCAGACCTTCAAGAACAACTTTGGAGTAGAAACCTTGGGCAAATCTGTAGCTCAACTCCATGCATGGTGGTATTTTAAAAAGCCCAGAGACTTCCCCTATGAGAGAAGAACTAAATCTGCAGCTTTCATCCCCTTTGAAAAAGGAGATTTCTATTACCACAGGGCCATTGTTGGCGGCACACCCCTAAACGTCTTAAATCTAATTGAACAATATATAAAGGGAATTACAGATGACAACACAAATAAACTTGTTAGCACATTTGAAAGCCACCTAAATAAATATTTTTTTATCAACAAACCCGCTAGGGTGTTATCACCAGAGTACAACTGGGACCCAAGATTTAAAACTCCTCCGGAAATCAAGCACATTAAGATAGCTTGGAAACCATAAATCATACTATGGTTGTGCCCTGGGGTTTATGAAATCACAAGTAAATACCAGGGAATTCCTCAAAAATAAAACTCTGGAGAGCTTACACAAGTGTGTAATCTTTCAGAATAAATTGTCTTTGAAATTATAATTCTCCTTAGTCTAAATAAAAGTAACTCGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026882:ENSMUST00000028243:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(14.8=100)
A:
NA
C2:
PF034148=Glyco_transf_6=PD(70.1=99.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGGCTGTCTTCGCTACTGG
R:
AGCTACAGATTTGCCCAAGGT
Band lengths:
343-814
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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