MmuINT0161950 @ mm10
Intron Retention
Gene
ENSMUSG00000029829 | Tmem213
Description
transmembrane protein 213 [Source:MGI Symbol;Acc:MGI:1924772]
Coordinates
chr6:38114608-38115809:+
Coord C1 exon
chr6:38114608-38114676
Coord A exon
chr6:38114677-38115548
Coord C2 exon
chr6:38115549-38115809
Length
872 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
CGTTCTTGCTCTCCTGTCAGATG
3' ss Score
10.43
Exon sequences
Seq C1 exon
AAACCAGCAGCAGCAACTCAACCCTGAGTGCACACCACCCAGACCCCGGGACCCTGGAGCAGTGTGCCA
Seq A exon
GTAAGTCTCTCCTGTCAACTGCCCTGATCTTCGAGCCATCCCCGTAGCTAGGAAAGAAACTTGGGCCCCTCTCTGTCCATTAACCTGTGTCCCAGCGACGGCCTGGTCTTCCCAGACACTTGGGGATGAGGAATGTCCCAGCACTGTCCACAGAGCAGATTAAAAGCTAGCTTGGCTTTGATCAAAATTTGTTGCATGCTCTTTTGCACAGGTGGGTCTAATGACCCATCCCATGGCCAGCAGTCAAAGGTGAAAATGTTGTAGCATATTAGGGGTAAGAAGCCCATTAAAATATCACTGCTCCAACCTCTGCCCAAAGCAGGAACTGGCTTATGGACTCTTCCTCTATTTCCATTCATCCTCTTGACATATTTCCAGGGATAGGATGCTCAGACAGCACAAAGGAATCTCTATCACGTGTGTCCAATCAACGGAAGGTTTTGCTTTGTCTTAACTCTGATCCCTTTATCCCATCCTCATCAAATGACCAACTGTGTACTCACAGATAGGGGAGGAGCAACAGTAAATGCCTAAGAGGCCAAGAACAGAGCTTTGGGGTCTACAGACTGGAATATGGGCTCTGCTTCTGCCATATTGGGTTCTTGGTCTTCGTCAGTTTGGGTTTCCTTATATGAAGTAGGGATAATAGTTGAAGCAGCACAGGGCTGGTAGGTCAGTGGCAGAGCCTATCCTCATTCAAGGCCCTGGGCTCAGTACCCAGCACCAAAGCAGAGGTAGTAACAGCGCTGTTATCTTGAGTGCATAAGGTAGCAAACAAGTAGCAAGTGCTTCTTGGCCAGCGTTCTTGTTCTAAACTGAGAGGGAGCCGGGGTGGCCAGTGTCTTACGGTCTCGTTCTTGCTCTCCTGTCAG
Seq C2 exon
ATGTCGACTTCTGCCCACTAGCCTCCCTGTGTTGCCGGGCTTCCGTAGATGAATATGGCTGGATTGCGGCAGCGGTTGGCTGGAGTTTCTGGTTCCTCACCCTCATCCTGCTGTGCGTGGACAAACTGATGAAGTTAACTCCAGAGGAGCCCAAAGACCTGGCGGCATGAGCCCAAGGATGGCTTTTTCTATCATTTGGGGGTGTGGGAGGGGGAATACTTCTAGAAGCTTCTGTCACTTTAAAGTCACGTGTTCCTCGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029829:ENSMUST00000031851:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.208 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF151921=TMEM213=FE(28.0=100)
A:
NA
C2:
PF151921=TMEM213=PD(67.1=96.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
AAACCAGCAGCAGCAACTCAA
R:
TCGAGGAACACGTGACTTTAAAGT
Band lengths:
329-1201
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