MmuINT0046176 @ mm10
Intron Retention
Gene
ENSMUSG00000030160 | Tmem52b
Description
transmembrane protein 52B [Source:MGI Symbol;Acc:MGI:2442838]
Coordinates
chr6:129516575-129519227:+
Coord C1 exon
chr6:129516575-129516741
Coord A exon
chr6:129516742-129517150
Coord C2 exon
chr6:129517151-129519227
Length
409 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
AACTCTGTCTTCCTTCACAGCTC
3' ss Score
11.01
Exon sequences
Seq C1 exon
GTTGCTGGTGGTGGTTGGCGCACTGCTTCTCCTGTGTGGCCTGACTTCAGTATGCTTCCGCTGCTGCCTGAGCCGTCCAGAAAACGGGGAAGATGGGGCCCCGCCGCCTTATGAAGTGACTGTCATTGCTTTTGACCATGACAGCACTCTCCAGAGCACCATTACAT
Seq A exon
GTGAGTGGACTCAGAACACTAAGATAGGGGGTCAGGTTTGAAGATGTACTAAAAGGTTTGGCGGTGCATGTAGGGCAACCTGCCGACTAGCATTGCGTTTGGGAACTCGGTGTGGTTTTCATTTCCAGAATGTGGTGACCTAGGCTGTCACTGATGCCTGAATTCTCAAGGTTTCGTTTGTTGTTGTTTGTTTGTGTTTTTTTTGGCTGATGATAAATTGACCAACAAAGTAAAATATTGGAACAAAAGTTCTTTGAAGGATTTTTGTGAAGTTCGTCAAAGGTCACGGCAACGTGTTTGAACACAGGTGAAAGACAAAGAGACTCTCGGTGTGATGTAGATCTCTCGAATCTGAGGATATCACCTTTGGGTGTGATCATCTCTACACCAACTCTGTCTTCCTTCACAG
Seq C2 exon
CTCTGCAGTCCGTGTTTGGCCCTGCAGCTCGGAGAATCCTGGCAGTGGCTCATGCACACAGCTCCTTGGGCCAGCTGCCTTCCTCTGTGGACACACTCCCAGGCTACGAGGAAGCTCTTCGCATGAGCCGCTTCACAGTCGCAAGGTGTGGGCAGAAAGTTCCTGATTTACCCTCCGTTCCAGAGGAAAAGCAGCTGCCTCCCACGGGGAAGGAATCTCCTGGGACAGAACCCCCATCACACTGATGGGGGTACTGACGGGATTCCTGATAGTCAAAGCATCATCAGACCTGGAACGATCCCAAGATACATGAGATGTTTTCTTTTATACCACCCAGCAAGGTTCAGGATGCCACCTAGACATGTTCTGTGAACAAGGTGGGTTCTCACTCTTCATTCACAACAACGTGCTTTTTCTGATACACACATTGCTAATTGAGTTCTAACTCGTTATTCAAAGTTCAAAGCTTGCAACTCACCTTTAGCTATATTGACTACTACCAAAGCATGGAACATTAAGGTGTCTTGAATTCCTTCAACTACAGCATGCATATAAAGTTTCTTTAACCCTATAATCCTGCAAATTGCTCTTCCCTCTACTTGACTGTGGTAATCTTGAAGGGAGACATACTTTGTGCACAGCCACTACCATCAGTGCACCAAATCCATGCATCTTTCCTTTTAGGGAACAACCACCATTATGCTGAACAACCTGGTACACCATAGAATCCCCACCTGGACTTGCAGATTGCACAGCCAGGGGTTCTGATATGAGTGGAGAGACTATACTACAGTATGTGGCACATGTCAAAACCGTTCTATCAGTTTAGTCTTACCCACAAGAGTGAAACATTGTATAGAGTACAGAAGTGGTCCTAGCAACTTTTCAGTGCTTTGTCCTGCAAACACACACACACACACTCACACACACACACACACACACACTTTTTAGGCTCTGAAAGAAAGCATTCCTCTGCTTCTTTCCTTCTTGTTCTCAGGATGGAAAGCCTTCACCATGTAGTCTAGAGTGACCTATCCTGGCTCTTGAGGTGGGTCTTGCTGCCACCTAGTGGAACAATAATTAAAAATTCACTCCGTTGAGGTCTGTGCACCTTTCCAATTCTCAGTGCTACCCTAACTAAGCCTGGATCTTCTTCTGATGGCATATACAATCAAAAGAGGGTGCCAAGCTATCCTGGTGGTGCCACCTTCCACACTGCTGTCATTACCATCAAAGCAGTGAGATGTATTCTGGGGGAAAAAAAAACTGCTTAGAGAAGTTACTCAAATCCTGGAATAATCATTTTCTCATCTGTAAGTTAGACATCATTGTGCACATTCAAGAACACATATACCCCAAGGCACTATTTGTAAAACATCCCGTGTATCACGTGTTATTCTTCCTGTTGTCCTCTGCTCTTCAGTGGCCTGTGGTAACTTCACTGAGAATTATTTTCTGGTTTGTCCTTTTGCCTGTCTGTCTGCTGTGTTATTGTAAAACCATAGGTAAAGTACCTTTATTTTATCAATAAAAATGTCTTGATTGAGATAAACAGAAAACAACAACAACAACAACAACAACAACAACAACAAAACACCTAAGGATTCCTCTGAACACACTTTGCAGACAAAACTGTTTTGTATGTGACTAGCTGGGGTACCCTGGGGGGATGATTCGATGGGGGAGGGGGCTGATGAGTGCTGCACCTCATTAAATACATTCTTGCAATGTTCACCGAAGCCCTGAGGGAAAAGCACTGCAAGTGAGTGCAATCTGCTAGTGATTGGAACTCCTGAATCACAGATCAGAGTGCCTGGGCAAGCTGATGAGCATAAGTTGTTAGCAGCAGCTAAAACGGTTTTACTTTACCCCCACCAAGAAAGTCATCCACAAAATCGGCTTCACTTTCTCTTCACCTTCAATTATTCATCTTTTCTTTTGAGATGGTACTTTGATGCATAGACTAGGGCAGTCTCCCAGTTTCTATGACACCAAGACTTGCCTTCACCTGCCAATTTCCTGCCTAACTCTGTCTCTTTTATTATTATTATTAAATTATTTTATTTATTTATATTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030160:ENSMUST00000032263:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.321
Domain overlap (PFAM):
C1:
PF149791=TMEM52=FE(39.4=100)
A:
NA
C2:
PF149791=TMEM52=PD(45.1=78.0)
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:
CAGAAAACGGGGAAGATGGGG
R:
AATCCCGTCAGTACCCCCATC
Band lengths:
354-763
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