MmuINT0154406 @ mm9
Intron Retention
Gene
ENSMUSG00000026915 | Strbp
Description
spermatid perinuclear RNA binding protein [Source:MGI Symbol;Acc:MGI:104626]
Coordinates
chr2:37454641-37456423:-
Coord C1 exon
chr2:37456265-37456423
Coord A exon
chr2:37454776-37456264
Coord C2 exon
chr2:37454641-37454775
Length
1489 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAC
5' ss Score
6.64
3' ss Seq
CTCTTCCCTGTCCCTTTTAGGTA
3' ss Score
12.83
Exon sequences
Seq C1 exon
GTTTTACAGGCAATGGGATACCCAACAGGTTTTGATGCAGATATTGAATGTATCAGTTCCGATGAAAAATCAGATAATGAAAGCAAAAATGATACAGTATCTTCAAACTCAAGCAATAATACTGGAAATTCTACAACTGAGACCTCCAGTACCTTAGAG
Seq A exon
GTATACTTGTAAATTTTTCTTCTTGAGAATAAAGTAGTGTGAGTGCTATGGAAAACCTTAGAGATGTGGAAAAAATAAGCTCTTTCACATAGAGGCATATATTACTAATTTTCTGCCTTATTTCTTTGGATGGTGCTTGGTATCAAACCCTAGATCTTGTGCACATTAGGCAAACACTACACCACTGAGTCACAGTTGGAACTCTCTGATTACTTTTTTGTTTTGTTTTGTTTTGTTTTGTTTTTGAGATTGAGCTTCTAGTTTTTCAGGCTGGCCTCCTCCAATTCCCTGTGTGGTGGAGGTTGACATTGAACTAGTAACCCTCCTGCTTCCACCTTCCAAATGCTGGGATTATAGGAGCATTGCCACATTTGGATGTTCGACCTTAATTGTGTTAGATTTATTTCTGAATATATTTATAAAGACAATCATTTTCATGTAGCTTTTCATCTTGATCTTCTTTTACTGAATTCCTGAAAAGAATCTGTCAACATACCTATGCAGAAATACATACACTTTAATTTAGAGCACATACTGGCCATGGGAATACTTCTAAAATGTCATAATGATATGTATCAAGACTAACACTATTAACCTTAGGATAAAAACTTAAAAAACATCTCGTAGAGGAAACAGATTTTTTTGAGGTGTCTGCCAAGCTGTGGTACATGAGGTGCACAAGTTCACCATTTAATGTGTGAATAGACTGCCCACTGTGTATTTCAGAATAAGAGTTAGTCCTGGATTGTGTGGACTAGTGATTCCAGATAATAGAATGGAATAAACCTAAGTTTTGGGAGGAGCCTGTGTTGACTGCATCCTCTCTAAAGAATTGGCTTTGGAATAATAGCAAGAAGTCACATATTTTTGAAGAAATGATCTTTTGTGGGGTAAGGAAACACATACACATAGCAGACATTCAAAGGTTTCACCTCAGCAGTCTAAAACAGAAATCGATCTCTTGCATTTCTACAGCAGGCACCTACCTCCTCTGTAACACATATACCAGGGAATGTATGCCTTTATTTTTATTTCTTCAGAATCTGTAGTTTATATCCTGTATTTTTACATTAGGTGTCTTCAGATTGTTTAGGGGGACCAAAAGGCTTATAGAGACATTGCTTCCCACATGCAAAATGGAGAGTTATTTCTTGCATACCTAAAAATAAACAATAATAAACCTTCAAGGCATCAAGCAAATTGCTGTTATTGTCTCTGCTTTGTTAGTTCCCTGCCGTGTCAGGACATGAACAATTATAGCTCAAACCTTAGAGGTTGAATGGGACAGTTCTCCTTCAAAGGCAGACTGTTCAGGTTACTACAATATTTACACCTTACAGAGTTTTCCTCACCTATGATTAATGTCTTGCTATCAGGTGATTCATTTTTGTTCTTAAATGTTTTAAAGTAGAATTAATGAGTTTACTTTTTAACATAATTATGTTGAAAAGAAATTCAGTGTTCAACCTCTCTTCCCTGTCCCTTTTAG
Seq C2 exon
GTAAGAACTCAGGGTCCTATCCTCACAGCAAGTGGCAAAAATCCTGTGATGGAGCTCAATGAAAAAAGAAGAGGTCTCAAATATGAACTCATCTCAGAAACTGGTGGAAGCCATGACAAGCGCTTTGTAATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026915-Strbp:NM_009261:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.717 A=NA C2=0.711
Domain overlap (PFAM):
C1:
PF0003520=dsrm=PD(6.3=7.5)
A:
NA
C2:
PF0003520=dsrm=PU(50.8=71.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAACAGGTTTTGATGCAGA
R:
ATTACAAAGCGCTTGTCATGGC
Band lengths:
270-1759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: