MmuINT0168860 @ mm10
Intron Retention
Gene
ENSMUSG00000035898 | Uba6
Description
ubiquitin-like modifier activating enzyme 6 [Source:MGI Symbol;Acc:MGI:1913894]
Coordinates
chr5:86120528-86122498:-
Coord C1 exon
chr5:86122305-86122498
Coord A exon
chr5:86120656-86122304
Coord C2 exon
chr5:86120528-86120655
Length
1649 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
AGATCACCTCTCTTATCTAGGTT
3' ss Score
7.23
Exon sequences
Seq C1 exon
GTGACCTTCAGATGACAGTGCTTTCATTTGAAAAAGATGATGACCGTAATGGACACATAGATTTCATCACAGCTGCTTCCAACCTTCGAGCCAAAATGTATAGCATTGAACCAGCTGACCGTTTTAAAACTAAACGCATAGCTGGTAAAATTATACCTGCTATAGCAACATCTACTGCTGCAGTTTCTGGCTTG
Seq A exon
GTAAGCTTATTCTTTTAAAAATGCTTGTTTCTCCCACATTATACCAACCTTAGCTTGCCGCTCATATTTTAGAGATGAAGGAATAAAAAGTTGGAAATTCTAAATTTAAAATTTTAAGATATTTCTGAAAATACAGTAAGGCATATATCTTGGTCCTACATTTATAAACATAATAAGCTCAACATAGGATATAGTTGTTCTTACTGACAGTGGTCCCAATAACGTTTCTTTCCCTCCTGGGTTTGGGGCAGTGGAAAGAATGTCCCACCCCAATAGCCAGCTGATATACAGGACCTGGAGGCCAGGGGACATGTCAAGATCCCCTGGATTTGGAGTTCAGCATGCAGAAATCCTGAGGTCCCAGAGTGAGTTACGGAAGAGTACTTGCTTTTGAACACTCAGAGGCAGTTGGACAGGGTCAGGGAAGAAGATGGGGGGTCCCTATCCTCCCAAAGCAGAACTGAGGGCAACAGAGAAGCATCCAGATAGAGAGCCTGTCAGTTTCCCTCCAGTGCTCCCTCCACAGGACTCTTGTTAGCCTCCACGCAGAGTAGGAATTCTCAATATTGTAAGTAATTGCGAATCATCATTATGAGCACTTGTTACGCTGTACTGTATTGGTACTCTAAAGTTAGAGTCCATTATCAATCCCTGTATTGATTGGTTTTAGGTTGCTTTAGTTTTGTGTTGTGTTGTGTTATAGTTTGAAAATAGGATGAAATGGTGAAATAATTTTGTTTACTATATATGGAATAGGCTGGACATATTGAATCTATTCCATTTTAATTTAATTTAATTCCAATTAAAATGCCGATCTAATAGAGAATTATAGAATGTGTAAAAAAAATCATTTGTTGCTTTTTTAGATATCTGTACAGGTTAATTAATTTCAATAATGCCATATGTGGGCTGGCTCAGAATTTTCCATGAAAGGATTACTTTGTTACATGTTTTAGAATATATTTATTTTTAAAAATGCTTTCAAAAACCACTTGCAAAGCTAAAACAAAAAATGAATTTGGATAATAATTACTTTCTCTAACATTTTCAAATTCAGATGATTAATATATTTGGGCACAAAATTTCAAAATGATGTTAATACAAATAAATTAATATACTACTAAATTTTATCTAAGAGAATAAAATAATTACATTTTTTGTGGTATTTACCCAAGCTACTTACTTGTGTTAAAACTTCATGTTGTACCAACCAAGTTTGTATATTTTTGTAACTTTTTTTATGTTTTAACTAAAGTATATGAAAAGAAAAGAAAGAAAGAAAAACATCTTTGAAGTTCTTTTTAAAATACATTGATGGGGTTGGGGACTTAGCTCAGTGGTAGAGTGCTTGCCCCTGGGTTCAGTCCTCAGCTCTGGTAGAAAAAAAAAAAGACAAAATAAAATACATTGAATGTTCCTTAGAATTTAAAAATATAATAGTAAATTACTAAAATGAAAATTATGAAAAAATAAAAAAATAAACTTTACTAAAAATATACAGGTCAGTTAAATAAGAAATGTATGTTGTTGCAATCATACATTTACATACTATTTACAGAGAAATGCTTGAACCTTGGAAAACAGCAAGACCAATTACGTTCCCAAGTAGTTTAGACTCTTCAGATAATCAGATCACCTCTCTTATCTAG
Seq C2 exon
GTTGCTTTGGAGATGATCAAGGTAGCTGGTGGCTATCCCTTCGACGCTTACAAAAACTGTTTCCTTAATTTAGCCATTCCAATAATAGTGTTTACAGAGACATCTGAAGTAAGAAAAACTGAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035898:ENSMUST00000039373:29
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=0.000
Domain overlap (PFAM):
C1:
PF0213416=UBACT=PU(81.2=86.2)
A:
NA
C2:
PF0213416=UBACT=PD(15.9=25.6),PF093585=UBA_e1_C=PU(21.1=60.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACCTTCAGATGACAGTGCT
R:
TCAGTTTTTCTTACTTCAGATGTCTC
Band lengths:
316-1965
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