MmuINT1002000 @ mm10
Intron Retention
Gene
ENSMUSG00000086277 | 4930558K02Rik
Description
RIKEN cDNA 4930558K02 gene [Source:MGI Symbol;Acc:MGI:1922618]
Coordinates
chr1:161964822-161967996:-
Coord C1 exon
chr1:161967911-161967996
Coord A exon
chr1:161964907-161967910
Coord C2 exon
chr1:161964822-161964906
Length
3004 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
CCTTTGCATTGCTCGCCTAGGTA
3' ss Score
6.77
Exon sequences
Seq C1 exon
GCTTTTGTTCCAAAGTTTGACAAGATTCCTTGGCTGAGTGAGGCCAGCCTGGTAAACAAACCATTGATCCTGAGCATCCCCAGAAG
Seq A exon
GTAACTTCCCAGCTTCTGAGGACAGAGCCTTCGAGGCAGAGCTCAGTGGTTGTACTCTTAAGGTGGAGAGGTGCATGTGCCCTGTTGAGAAACCAAGTCGAATGCAAAAAAAAGAAAAAGAAAAAGAAAAAAGAAAGAAACGCCCTGGGTTTCTCAGACAAAGGTTATGCTATGTAAAGGCCTGGCTAGAAGAAATGAGAGCCGCCATAACCTTCATTTCTGCGTGTACTATTCAACCACAGACACTGTAACTCAAAACACTTCCATAGTTTCCCCCCACCCCGCTTCAATTTCTAGTCTTCGAATTCTAATTATCAATAACCTAGAACTATAACACGCCATCTTTATAGAGTAGCAATAGCTGTATTTCACGTGGGGCCTCCTCCAGTTTCATGGGTCGCTCATGCCCTCACAAAGCCAATAGATAACACATTTCTGATTTTGAAAACTGAGGATTTATATGTATGGGGCATTTCAGCTTCTACTTAAAATAATTAAGTTCTTCATTCAACACCTCCCCGCCCCTTACAGTTAAGTTGTCCCTGGGTGTGGTGATAAATCTCTGAGAGAAATGTAGGTTGTGAGATGATGGCGGGAAATAAGGAATCGGGGATGAGCAAGGACGGTGCAGAGGCAGTTCCATAGGCTTGTCTTAGACTGGAAATGGTTGCTAGAGAGAGCACAGGCTCAAAGAGTTTCTTTTCCTGTTGATAATCGTCATACATCTTTAGGTCTGTGAGCAAATGACCACATGAGGGGCATCCATGCCTCCATAACACATGTCTGCTTTGTCTACTCTTTAAAACAGTTCTCAAAAGGCTGATAGATGATTTTGTGTATTTTCAGAGCAAACATTTGAGTGCATGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTATCTGGCATGAGCAATGAGAGGTTCAATAAACTCAAAGGTTTGTTTAGGAAGTATCAAAGTAATATACCCACTAAGAGTTGATAACACCTCAAGAGTCATCGTGAGTAAATGATAACTTAGCATCCGTTTTCAATTCGACTATGTCATAAGCTCACATGCAGTCAGCTGGAAGCCACACTGATTAGGTTGGTCAGATGGAAGTAGCAGTGAATGGAAGAACTGGCCAAAGGTGACACTCCCTCTTCCTCAGTCAATGTTGCCTCAGATATCTGAGTCCAGGGCCAAATACGCTCAGTTTTCTAATTAGAAATATAGAAACTTTCAATTGCTAATGCCTGACATTAATAAGCTAACCGCCACCATCCCTTAGTACTCCCTGCCCATTAGATGCACTCTGAACCAGGGGCATCCCAGTGCATGTTCATCTTGCCTCCAACTCCCCTGTCCTCTGTCTGAGCCTCTGGTGAAAGGCAGGAAGTGGAGAGCAGAGCAGAGCTTGAGAGAGGCAGGCTTAGTACTCAACTGGGCAGGCATGGTACCTGTTTCAGAGTCAAGGTCAGGGTTGTCAGGGAGACGGGGCTATCTACAGCATCTGGAAAGGGACACAGAAACACACCACCACCACCACCACCGGCCAAATGTAGGTGAGTGATAAGAAGTTACTTAAGGTAGTAAGTGAAATTCTTTCCAATCAAACGCTAAGACTGAGGGAGCAATCTTGGTGTCTGGTTGGAGAAATGAGCCTACTTACCTCATAAAACGTGTGAGGTGAGTAAACAGTACCTATGGAGTGCCCTCACCTCTCAGAGGGCAGGATAAAAATACAGCTTATTGGAAAAGGAAAGAGGAGAATTGATACATAGCTATTTTTTTAAGGACAAAATGTATTTGTCCAGAGTTCCAAGTCCCACACTCTTTGTTTGGCAGTAACTTCCCTCAACTCTTAGGGGATTAGTTCTTAGGGATAGTTCAGTGAACTCAAAGTATTACCTACGCACCCGTGGGCAAGCAGATCTAATAGAATGGTCTAGAAAAAGGTAAAGGGATGTTTAGAGGAATGTGTCTCAGACTATGCCAGCTTCAAACAAGCTCTGGAACACAGCTGTGGGGATGGAAGTGAGACACCCCCCCACACACACACACACACCACCCCAGAAGCAACATGGAAGTGCCATAGGAAGCTTCCAGAAGCACCCTCCCAGCTTGGCCGAACTGTGCTGAACCCACACCGGTTAGTAAGAGGTTACAGCGAAGCAGGACTAAGCCAGCCTTCTTGCCTTTCATGGTCGGTTTGGGGATAATAAATCTGAGGCAGCCCATTCCCATAACAGAGAAGCTCGCAGAGGAATTTACATCAGACCACCTCCCCAGCTTCCTAGGACTCAGGGAAGCGACAAGAGAAACGAAACAAATACTTCCCGAACACCACACTCCTTTCCCATGAAGAATGAACGATGAAATCCCTTCTCACGAAAGCGGAGAGGTGTTCTTGGCAAAAGATCAGCATTCCATGTCTCCATCTCAGTGTCTCTCTGTCCCCACACCAAGGCCTCAGCCCCTCATTCTTTAACTAAATGATCTTCAATGGGAGGCTGGGTTAGCTTGTGGAGACAACTGGTGTTGCCCTGTCGCATCTTCATGTTTCCCAGCAACTGGGGAGAATGTTCCAGGGAAAGATGCTCTGTGTGGGAGGACAGAGGTGAGTTGTTTGAGTGTGCAGGGGCATAAAGTCTAGGAGTTCCAGCCAGGCATGGAAGGATGGGTTCTTGGTAAGTGTTTAAAGCATCCATTGCAGGTATCTTGGAGAAGAAACCTAAGGAGCACTTCCTTCTGTGCACTTTGGCTTTCAGGAGCAGCCCTTCTCCCTGACTTATTTGCATCTCAACCATGACTCTCATTGGTTAGTTGAAATTAACAAAAAAGAAAAGGAAGAAAAAGAAGAGGGAAACCAAAGTGGCATAAGAGGGGACATAGCTATTAAGGCTGATCTGTGCAGAGCTGGGGCAGGGGCAGGGCAGGTGCCCAGGCCTTCCCTGGACCAGCTGGGGACAGGCTCTCCCAGCCCAACACTACGATTCTAACTCCCCTTTGCATTGCTCGCCTAG
Seq C2 exon
GTACCACTCCTCCTTTGTTCTGACTTCGTACAAGAAGGATATGTATTTGCCACACTTGCTTGAAAATCCAGACTTCCTATCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000086277:ENSMUST00000162676:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.034
Domain overlap (PFAM):
C1:
PF150811=DUF4548=PU(11.5=65.5)
A:
NA
C2:
PF150811=DUF4548=FE(17.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
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
- 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