MmuINT0153448 @ mm10
Intron Retention
Gene
ENSMUSG00000035459 | Stab2
Description
stabilin 2 [Source:MGI Symbol;Acc:MGI:2178743]
Coordinates
chr10:86848934-86850663:-
Coord C1 exon
chr10:86850557-86850663
Coord A exon
chr10:86849054-86850556
Coord C2 exon
chr10:86848934-86849053
Length
1503 bp
Sequences
Splice sites
5' ss Seq
ACAGTATGT
5' ss Score
6.05
3' ss Seq
CACTTTCTTCTGTTCCCCAGGAG
3' ss Score
9.46
Exon sequences
Seq C1 exon
ATGTTAACTGCACCTGCAAGGCAGGCTACGTGGGCGATGGCTTCTCCTGCAATGGGAACCTGCTGCAAGTCCTCATGTCCTTCCCCTCACTCACGAACTTCCTGACA
Seq A exon
GTATGTACCCTGTCTGCCTCTGTCCTCACCTATAGGACGGAGGTTCTGACGACGGCAGCCTCCTGGGACGGTTGTGGTCTTTAAACATGTTGGTATTTTGACAGTGTAAGCATGTGGATTGGTAAAGATCTTTTCCCAATCTGTGGGTTGCCTTTTGGTCTTATTGACAGTATCCTTTGCCTTACAGAAGTTTTGCAATTTTATGAGGTCCCATTTGTCGATTCTTGATCTTACAGCACAAGCCATTAGTGTTCTGTTCAGGAATCTTTCCCCTGTGCCCATATCTTCGAGGCTCTTCCCTACTTTTTCCTCTATAAGTTCCAGTGTCTCTGGTTTTATGTGGAGTTCTTTGATCCACTTAGACTTGAGCTTTGTACAAGGAGATAAGAATGGATCAATTCATCAATGCAATGCAGGTATGCCTGTGTTTGCATCTAAAATGGTTTAAGAAACTGACCAAACCAAAGTAAATAGCATGGCTATTTCTTATATCAATAGCACATCATATCAGAAGCAAATGGACACATTTTTGTCCGTCCACAGAATCAGAATTTATTAACGGTAAATTCACAAGCTGTGTCCATTTTATTGGCTGTAATTTACCATGTAGTCAGTTATAGTCTTGATAATATGACCACTGTCAACCACAGGTTCTTTTATTCTACCATCAATACTAACTCTTGGGCCATCTATTATACTTCACACACTAATACACACACATGCACATGACAGATTGGCTACAAAAGAGGCCACAAAGCTCAAAGAGGCCTTATGGAAGGCAGAGGTCTGACTCAGTGCCCAGGCACCTCAAGTGGTTAGATATTAAAAGAACCCGATGACAGAGCCTGGAAGGCAGCCTGGAGGCTCAAGGCAGGTGAGGCTCGGGGTTGGGCAACTCCGGCTGAATGGGCCTCAGTAAGCAAGAGGGACTACCCTGAGCTGAAGACCTGAAACAGTCTGGCATTCTCTGCCCATCAATCATGAGATGCATGCACTGTGCTAGATGGCTGGACGACAGATCAGTGAGGACCAGTGCTAGATGTCTCTTCCTTTATGGGTGAGGAGGTTGTGTCTACATAAAGAGGATGTATCATAAGTACACAGGCGGTTCCTTTTCACACGTATGAATGAGTTGTTTATCAGCCTGTGCATCATGATGTTGGTGTCTTTGTGCATCCGTGAGACACAGAACCACCCTGCCAATGGGTTTACACTCAGCATGGAGCCAGCTGCTGCTCTGTAAGACAGAGCAGTCACCCATGGCAGGACACAAGCACTGTCTCAGACAATGTGCAGTGGAGCAGTACCCAGAGCATCTTAGGACATTAGGACTCATTAGGATGTTAGCCATCCCGATACTCTGCCAAGGCCAGTGATAGGAAGTACAAAGGAAGTCAGACTTTAGCCTAGCAAAAGGGTATTCTCAGAGGCTTCTCCAGCTTCTCCAGCCACCCCAGCTCCCACACCATGGTAGCCCATCTGACACTTTCTTCTGTTCCCCAG
Seq C2 exon
GAGGTGCTGGTTTTTTCCAGGAGCTCAGCCCAAGGCCGGGCGTTTTTGAAACACCTGACTGACCTGTCCATCAGTGGCACCCTGTTTGTGCCACAGAACAGTGGGCTACCGAAAAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035459:ENSMUST00000035288:63
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=0.067
Domain overlap (PFAM):
C1:
PF129472=EGF_3=PD(34.8=44.4)
A:
NA
C2:
PF0246917=Fasciclin=PU(30.4=87.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGGCAGGCTACGTGG
R:
TTTCGGTAGCCCACTGTTCTG
Band lengths:
206-1709
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