MmuINT0142527 @ mm9
Intron Retention
Gene
ENSMUSG00000028820 | Sfpq
Description
splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated) [Source:MGI Symbol;Acc:MGI:1918764]
Coordinates
chr4:126704641-126708480:+
Coord C1 exon
chr4:126704641-126704762
Coord A exon
chr4:126704763-126707070
Coord C2 exon
chr4:126707071-126708480
Length
2308 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATG
5' ss Score
5.46
3' ss Seq
GTTAATTACTGTTTCAATAGCGT
3' ss Score
3.88
Exon sequences
Seq C1 exon
ATCCCTATGGTTCAGGAGGCCAGAAATTTCCACCACTAGGTGGTGGTGGTGGCATAGGTTATGAAGCTAATCCTGGAGTTCCACCAGCAACCATGAGTGGTTCCATGATGGGAAGCGACATG
Seq A exon
GTAATGTATCCTGTGGGACATAGTACAAAGGAGATTCTTAATTTCACAACTTGAGTATTTTATTTTTCCTCTCTCTTTCTCTCTTTTTAAAGTAGCTGACTGGACTTTCAGTTCCCCCATTGTGTAAATATATATAATACTGAGGACTACTTTGGCAATGTAGAACTATGTGTGGTAACCCAAACAGATATGGTTGCCACCAAGAAGTCAATGCTGTTATGTTAGTATGTGGAGTTAATCTTTGGCAATAAGTACATAGGTAGCTTCCATTTTATTGTCTGTGCACTTTTGAACCTCCAGTGCATGGCAAATCCAAATTTTAGATGCTAGATAGTTGTATATGGTTTTCTTGCATCCAAGTGAGAAATGGCACAGTGCCCTTTTGTGGTGTTTTCCATAAGTAGGAGTCAGACTTGAGGCTTGTAGTCTTAAGTATGTTAGAGTGACAGGTAGGCCTTTGACCTTATTTGTGGTTTCTGTTTCTAGCCCATGAAAAGAGGAACTGCCTAGTGTTTTGACTCGTCGTTTCCCACCTGTTGGGTTTCTCTGTAGGTGCATCTAAAAAAAAAAAAAGCCAAACTGATGTTTCTACTTTGCTACAGGGTAGCAAAAGTCAACAATAATTGAAGCATACTGATGGTGTGCATTTGTTCTGAACCCCTTGATGCAATCATGCTTTATCTATATGGAGATAGCCTGTCAGATGCTTTAAAATAGTCAAATGAATTTTGGTGTGAATGGCTGCTGTAGGGGTAGGACTTTACAGATCCTTAACTGCATTTTGGTGGGAAAAAATGTAGCTAAATTGAATCTAAATAATTCACCCATAGGCTTTTGTCTCAAAGGAGCTACAGTTGTAGCTCAATAGGATTTATTTTATAAATAGGAATTAAGGGTTTTAGTGTGAGACTACATTTAAAACCTGCCTACTGCTTCTTGAGAATTAAAGTTAGCATTATAAATGGCTGGATATACTGATAGGTTCTTCAAATTGAACTTAACATTTTGGTCTTAAAAGTATTTTCTAGAAGGCACAAGATGTATATATTAGGCGACTAGTTTGACATATGTTTAGGCTCCATGTCTAGACATAGATAGGTTTATACATTTAACAGTTTCTGGGTCCTTAGTGTAATATAACTGAAGCCTCAAATTTTTCTTTTTAGCTTTTTTTGTAGAAACTATACACCTTAAGACTTTCAAAAGAATACAATTGAAAGTCTGTTCAAGTAGTTTTGTAGTGTTTTTGTTTTTCAAAAGATGAATTGTAGGAACAGTTAAAACCTTGTTCAGTCTTTATTTTTATTTTGATTAGTAATTAGTAACTGGGCTATTTTGAGTAGAATTTTAAGTGGAGTGCTTGTGTGTAGGGTTCTGCTGTTAGGATATGTGGGTTTTATTTTACTTTGTGTTTTAAAGTCAAAATACATAAAACTAGATGGATAATGAAGTCATTCACTGCTTTACTGCAGTCACCCTAGCTTGATGATAGGCTGTTTTGGGAGATAACCTAAAACATGGATTCATAACAAAGTGACAGTGCACTTTCCAAAACTAAAAAAAAGCTGGACTCTGAAGTAGGTGGGCTGTATATTGTGCTTGTAACAATGCAGAAACATACTGTGCATGTATCTCTAGTTAGTAGTGATGGCTCTGAAGTGTGGAATGCTGTGAGACTGTGGCAAAATAAGTTTTTGATGAAGTTACTGTGCCGGTTAAGTGGAAAAAACTATTTTTTTGTGCTTTTTCTTTTTTGTAGTCTTGGTAGCATTTTATTAACTTCATTCCAACCTTTTAAGATTTCTGCAACTTTGCAGATGTGTCTTAAGATCTTGAAAAGCACAAGGTTTCTTATGCAGCACATGCCACTACCTGGTGAGTAGGCCTTTGTCCTTCATTGAGCGAGTTGCTTTTGTCTGACTGGACTTTGTAGGCTTGGAGATGACTTTGTGTTCATACCTGGACAATCGTGTCAGTGGATTAATCTGATGTGAATTTTGTAGAACTCATTTTTGGAATGGGTTTTCACATCTGCACTAATTTTTGAATTTTTTTAGCACTACAGGGAAGATCTATTCTTTGAAACAGGTGTATGAGAATGGCTCAAGTGGGAACATACCACAAGGCATGTATTACCGTAAACTAATTTTCAAATTACCCTTTTTTCCTTTCTATGTTCCCGGTACCTGTGGATCGACTCATTGGTGATTGTATCGACGAACGTTGACTACGGAACCTTCTAAAATATTTACTTAACACACATGGACATCAACTACATTTAATGAACTGTTAATTACTGTTTCAATAG
Seq C2 exon
CGTACTGAGCGCTTTGGGCAGGGAGGTGCGGGTCCTGTGGGTGGACAGGGTCCTAGAGGAATGGGGCCTGGAACTCCAGCAGGATATGGTAGAGGGAGAGAAGAGTATGAAGGGCCAAATAAAAAACCCCGATTTTAGATATTTAGGCTTTCATTCTAGTTTGGTTTTGTCTTTTCTTGTTTAGATACCACTTAAATTCTTGGCATTTTAGTAAGCAAGCTACCTTTTTATGGATGTTAGCAGTTTATTGACCTGATATTTGTAAATGGCCTGTTTGGGCAGGTAAAATTATGTAACGCAGTGTTCAAAACAGGAGAAAAAATTTTTTCATTTACTTTTTTTTTTAACTGTATAATGTTTCTCAAGTTAATGGCAGTGTACCTTGTGCCACCGAATTTCCAAAGTGTACCATTTTTTTTTTACTGTGCTTCAAATAAATAGAAAAAATAGTTATAATACTGATCTTCAACTTTGCTATTCATGCTTCTATGCACATTAGGCTAGGTATTTCACTTGGAAAGCATGAGCGTGTGTAGGCCTTTGAGTGGCATAAGCCATTTCTGGGAAATGTAACAGGAGGCTAAGTACTGCTTTCTACAAATGGTGCCCCCCCTTGTTAAAAAGAAATGCATACTGAAGTAATTAGGATTTGTTTGGCATTATAGGAAGCAGGCTGGTGCTCAGCATTTTTAAATGGTTATGTTAGAAAAGTTGAACTTGCAAGTCTTAATTCAGGAACATGTATTAAGATTATGGATGGGTGAAAACTATTGGTAGTGAGAGAAAGAGTTTGTTATTTTGGTTAAATGGATCCCTTATGGCCCTATCTATGATTCTTTCCTTGAAAGCTTTTGAAAATGGAAAGATCATCTTGTTGCGTTTCTCCCTGTTGTTTTTTAAAAGAATCCCAAGCCCTACAAATGGCTTGTACTGAACTTTTGCATTTGAATTAAAGATTGTTAAACATGAAGCCTTTTCATGTATTACTTCAAGTGATTTAAAAGATGGGACTTAGTCGGGAATTTTAACTTGAAGAGTTAAGGGTTAGCCAACTATAAGGACTAGCCTTATGTACTCTAACATACACCTTCCTGTGTTACTTCTATGGAGCAAAGTCTGTAGTCTGAAAATACTGGTTCTCTTGGAGAACTAGTGGTGACTGTTACCAAGTAGGACTGTCAAGTAGTCTCACTATGGAGTTGAACTGTTTTTATATATCAGTCTTACAGTGTAGCATTAAACCTGGAGATAGTTGCTTAGGCTACATAGTAAAAATATGCTTTCCTCCCACCATAAGCTTGGGGATGTTTTGATGATGTCAGTTCATTGTTAACTTCATTGAATTTCCTTTCGTTAGAGCAAGAGACTTTCTGACTTGATGATAATAAAGTAGATTGGTTACTGTTGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028820-Sfpq:NM_023603:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: