MmuINT0153435 @ mm10
Intron Retention
Gene
ENSMUSG00000035459 | Stab2
Description
stabilin 2 [Source:MGI Symbol;Acc:MGI:2178743]
Coordinates
chr10:86867148-86869198:-
Coord C1 exon
chr10:86869022-86869198
Coord A exon
chr10:86867238-86869021
Coord C2 exon
chr10:86867148-86867237
Length
1784 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
GGGCTTCCTCTCTCCCTCAGGCT
3' ss Score
9.59
Exon sequences
Seq C1 exon
GACTCAGGCTTGCTGAAAGTCATCACTGACCCCATGCATACCCCAGTCACTCTCTTCTGGCCTACGGACAAAGCCCTCCAAGCCTTGCCTCAGGAGCAGCAGGACTTCCTGTTCAATGAAGACAACAAAGACAAGCTGAAGGCATACCTGAAGTTCCACGTGATCCGAGATACCATG
Seq A exon
GTGAGCTTTGAAATGTACCACAGAAAGATACAGTCTGGCACTGAGGCCCCACAACCTACAGTTCACCATGTGTCCCCATCTTAGTTAAGATTTTATTGCTGTGAAGAGACACCATGACCATGGAGACTCTTATAAAACACTGCATTGGGGCTGCCTTACAGCCTTAGAGGTTCTGTCCCTTATCGTCATGGCAAGAACCATGGCAAAGCAACCATGCAGGCAGACATGGTGCTGGAGGAGGAGCTGAGAGTTGTCCATCTTGATCTTCAGGCAGCAGCAGGAGACTGTGTCCCACACTGGGAATAGATTAAACATAAGAGACCTCAAATCCCACCCTCAAAGTGACACACTTCCTCTAACAAGACTACACCTCCTAGTAGTGCCTTGCCCTATGGGCTAAACACATGAATCTATGGGGTCATATCTATTCAGACCACCACAGTCCCCATGCATGCATGGAAAAGAGGGAAGCTTTACCCACTCTGCCCTGTTGTGCCCTCCAATGACTGCCATGCTTGTGCTCACTGCAGTATACCTTGTCTGGTTCTATTGTCCGGACCAACACCCCATACCCAAGAGTGCCTGCTCCCTCTTGACCCATGCACTACCTTGGCACACTACAGTTTCACATGGCAGAATGGCAGCTGACAAAGGTCCCCTCCAAGTGTTTCCAGGTAGTCTTGACTGCTCCTGATTCCAACATCCCTAAGCAAATGACTGATTCACCGTAATGCCATCAGCTATAGGCCCCAGGAACCAGTCAGCTGTCCTGGAGAAGCCAGATCACATGGGAAAATGGCAGTCCTCAGTGAGCACTTCTGTCACTCTGAGACAAGGCTGTCTACTCCAAGATGCCAGCGCCCTGACTTCAGTTAACTCATAGGGTCTACACAGCAAATCACCACAGCCCTGTAACTGCAGAAAGTCACCCTCTCACTGCGGTTGAGGCTAAACTGCTGCCAGCAAGGTAGCAAGGTCATTTCTCTGAGGGCTTCTGAAGATGTCTGTTCCCTAAGTCTCCCCTGGCTGCTCATGGTTTCTGGCAGCCCCTGGTGTTCCTTAGCTTGTAGGTGCATCCATGCAATCTGCCTTTATCTTCCCACAGCCATCCTTCCCTGTGTCTCAATGTCCCCCATGGCAACCTCCTCTTCTAAGGGCATCATTTATATTGTATTAAGGGCTCACCCTACTCTAGGATTATTTCATCTTGCCCTACTATTAACTATATTTGCTCCCAAATAAGGTCATATTCTAAGGTCATTGGGGTCAAAGTTTTATATAGATTTATTTTTTTGTTTTGTTTTTGTTTTCTTGAAACGGGGTCTCACTACATAGTCATGGCTAGCTTGTATCACACTGAGTAGACAAGACTAAACTAGCCTTAAACTCAGAGGTCTGCCTGCCTCTACCTCCTGAATGTTGGGATTAAAGGTGTGTGCCACCATGACTAGCTCATATAACTTTTAAAGGAGCACATTTCAGGCCACAGAGATGCCCTGAACCATTTTCCAGCTAACTCCACTCATCTTCTCGTTGTCTTCATACACCTAGGCAGCCCAAGCACGGATGCCCAGCCCTCATAGACCGTCCCTGAAGAAGGAAGCTCCACCCCTGGAAAGTCATGGGCATACCTCACCTTTGCTTACATTCTCTGTTGCTTCAGCTTGAGTTATTAAAACATGTAGGAAATTTTGTGTTACCCATTTGAGTTCGGTTTGCTGGTACAGGAGCTCTGGCCCTTCAGTCCTAATGCAGGTATTAACAGGGCTTCCTCTCTCCCTCAG
Seq C2 exon
GCTTTAGCTTCAGACCTCCCCAGGTCTGCTTCCTGGAAGACCCTGCAGGGTTCCGAGCTGAGTGTGAGGTGTGGAACTGGCAGTGATGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035459:ENSMUST00000035288:51
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:
PF0246917=Fasciclin=FE(43.6=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(21.8=100)
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:
ACTCAGGCTTGCTGAAAGTCA
R:
ACATCACTGCCAGTTCCACAC
Band lengths:
265-2049
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