MmuINT0154403 @ mm9
Intron Retention
Gene
ENSMUSG00000026915 | Strbp
Description
spermatid perinuclear RNA binding protein [Source:MGI Symbol;Acc:MGI:104626]
Coordinates
chr2:37500991-37502805:-
Coord C1 exon
chr2:37502636-37502805
Coord A exon
chr2:37501212-37502635
Coord C2 exon
chr2:37500991-37501211
Length
1424 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TGTTTTCCTCCCTTTGATAGAGA
3' ss Score
7.63
Exon sequences
Seq C1 exon
GTGTATTCCAGAGAACAATTTTGAGATATCTTTGCTTATATTTGACATTGAGCAGTCAGGGGATTTAGGCATATGAGGAGGTACTGTCACATAAAACAGTGTCTAGTGAAGACGACAAGAAAGAGAGAAAAGGATCGGAAAAAGAAGCTAAAATACCATAGGAAACCATG
Seq A exon
GTGAGTGGTGACTGATTGCTTTCATTTTTTTAGTCATAAACGATTATATAATGTTAAATTGCAAATGTTAACAGTGAGAGTAGAAACCTTAGATAAACATGGTTGCTCTTCTGGTAAAGAAAAGATTAGAGGGAGCTGGGGATCACATGATGGTTCACAATCATTTGTAACTCCAGTTCAAAAAGATCCAATGCCCTCTTCTGTTTCCTTGACAAAGCACCTCTACACATAAAATTAATAAAAAACAAATTAAAAAAAAAAAGCCCGGCAGTGGTGGTGCACGCCTTTAACCCCAGCACTTGGGAGGCAGAGGCAGTCAGATTTCTGAGTTCCAGGCCAGTCTGGTCTACAGAGTGAGTTCCAGGACGGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACCAATTTAAAAAAAAAAAGAAAAATTACATTGTGACTTGCTTTTCTGGTGAATTACCTGCTTTTAGGAGAATATAGCTTTACTATAATTGTAGTTTTTATAGTCCTTTGACTTAATGTCGTCATACATCTATGTATGTGTGTATATATACACACCCAAGCTTTCTTCTGTTTGTTTGTTTGTTTGTTTATTTATTTATTTAGATTCACCCTTAGATGTTTGTAACATTTTTGTGTTTTGATATAATTTGATTCATTTTTCTTTATTGCTGCTTCTGAGTTTAAAGATTTGTATGATCATTTTTCTGTTTTTTTTTTTTTTGGGTATAGTTCTTCTGGTCTAATTATTTTAATACTTAAATATGTTTATCCAGAGCTTATTTGAATAATTTTTTAGTGATTTTGATATGAATGCAATACATATGTTAACTTAGATGGATAAGTTGATTGTTTTTGAATTATGTATTTTCCCTATTATGAAATTTGGAATGCTTCTCGTTCAAAGGATCCTACCAAAGATTTGGGTGCCAAATGCTAGACATTACTCTATTGTTATATAGTTCAGATTATAAATTTGTATCTTGATTATTACTATATTATATAGCCTTAATGAAAGGTGTGAGAATTTCTAGCACTTTGGGAGATAGGAGTTGGCTGGGTGATGTCACATTGTGAATTACCATCATTTATTTCTAGAGTGACTCTTAAAACTACAATGTTATGTAGTATGGATAATGGTCTGTTTTGTTTTGTTTTTTGAAGGGGTAATCAGAAAGTCACAAATTTAGCTGAAAGACAGAGTGTTTACATTGTGACTTATATGAATCCTACCAAGTGAAATACCTCCTGTTTTGGGATATGCCATTTGAATAAAATAGAACTCTACTTATCATTCATGATTATTGTTTGAACATTAACTGCCTTATAGTGGTTATCAGTTGGTGTTATGTTGACTAAAAATACACTTATTTTTAGGAGGTCACATTCTTTTTCCTTTTTCTTTTGTTTTCCTCCCTTTGATAG
Seq C2 exon
AGATCTATTAGATCTTTTGCCAATGATGATCGCCATGTTATGGTGAAACATTCAACAATCTATCCATCTCCAGAGGAACTTGAAGCTGTGCAAAATATGGTGTCTACTGTTGAATGTGCTCTTAAACATGTCTCAGATTGGCTGGACGAAACAAACAAAGGCACAAAACCTGAGGGGGAAACAGAAGTAAAGAAAGATGAAGCTGTGGAAAACTATTCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026915-Strbp:NM_009261:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.351
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACATTGAGCAGTCAGGGGA
R:
AGTTTTCCACAGCTTCATCTTTCT
Band lengths:
342-1766
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: