MmuINT0157256 @ mm10
Intron Retention
Gene
ENSMUSG00000039678 | Tbc1d13
Description
TBC1 domain family, member 13 [Source:MGI Symbol;Acc:MGI:2385326]
Coordinates
chr2:30133746-30134870:+
Coord C1 exon
chr2:30133746-30133912
Coord A exon
chr2:30133913-30134796
Coord C2 exon
chr2:30134797-30134870
Length
884 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
TTCCTTTTCTGCCCTTGAAGGAT
3' ss Score
8.91
Exon sequences
Seq C1 exon
GCCCCCGCGGAACGCGCACGCTCCAAGTTCTGCTTCCTGCCGGAGGCTTTTGCCCAGCGCCCCGTGTCCCCGGAGGGAGGGGGGCGGTGGCGGTGGCGGCAGCTGGGGCTGCAGAAGCAGCTCGGGAGTCCGGAAGTCAACACCATGTCGAGTCTGCACAAGAGCCG
Seq A exon
GTAAGGAGACCTGAGGTCAAGACTGCACCCAGACCGCTCCGTCCAGGCCGGGCCTTCGCACAGAGAGAGCTGCTCAGCGCATGTGCGGCCAAGAACAGCCCCCTCCCCCGGCGGCGAGCCCCCTTACGGTCTCATTGCCTGTGTGGCAGAGGCGAGAAGCAGAGATGCTTCTCTTACCTCAGTGTCACCTTTCTTTCTCTCTCACTCGGGACCCCTTTCCCTAGTGTCTCCCTTGTCCAGCCCCCTATTACCCTCCCCGCTTCCTCGCTCTAGGATTCGCACCTTCCCCCGCCCCCAAATGCCCCTGTCCCTGTGCTCCATGCTCATGAGAAACACCAGGGGATCCAGGTTCTCCAATCTGGCCTCTTAAATCCACCTCCTACCCCCACCCCAGGCACATCTTGCAACGCCCGCTAAATTCTGGTCACTCCAGGACTAATTTTTAGTCTTTTGTCTTTGCCTGAGGGCAGGCCCGAGAAGTCTGTGCCCCCTCCCCTTTACCCAGCCAAGAGCTTCGGGAGCCATGGGGAGATTGTACAAGTCTGTTGTCTGTGGATCCAATTACTCCTGGTTGCAGGAAGCTTGGTTGTGTGAATTCGGGTAGTGGTGTGCTGTGGGCTGGGCTTGGCCGCAGCAAGTGCCCAGGAAATGCCAGCTCGCTAACAGTGGACAGTGCTTAATGTTAAGTTCTCACTTCAAACCCTTTGGATTAGAATACCTCTCATGGCTTTTCGTTGACATGGCAGATCTTAGAGGAAGAAACTTGTATTGTCCACTTCCCTAAGCTGGTAGTTGGAGACCGTTGGGAGTGAAAGATCTTTGGGCTGGCTGCAAGAGTGGTCATTAAGCCTGTTACCTTGGCGTTTCCTTTTCTGCCCTTGAAG
Seq C2 exon
GATTGCAGATTTCCAGGATGTCCTGAAGGAGCCCTCCATTGTGTTGGAAAAGCTTCGAGAACTCAGTTTTAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039678:ENSMUST00000044556:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACGCGCACGCTCCAAG
R:
CACTAAAACTGAGTTCTCGAAGCT
Band lengths:
232-1116
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