MmuINT1032491 @ mm10
Intron Retention
Gene
ENSMUSG00000014873 | Surf2
Description
surfeit gene 2 [Source:MGI Symbol;Acc:MGI:98444]
Coordinates
chr2:26919192-26920183:+
Coord C1 exon
chr2:26919192-26919358
Coord A exon
chr2:26919359-26919726
Coord C2 exon
chr2:26919727-26920183
Length
368 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
AGCATTTTCTGCTTTCACAGAAG
3' ss Score
6.08
Exon sequences
Seq C1 exon
CTGAGCTGTTCACAAAGAGAGAACTAGGCAAGCCTAAGAACGATGACACTCCTGAAGACTTTCTGACAGACCAACAGGATGAGAAGCCGGAGCATTCAGAAGAGAAGAGCTTTAGAGAGAGGGAAGAGGCCAGAGTGGGCCACAAGAGGGGTCGTAAACTGAGGAAG
Seq A exon
GTGAGTGGTGGGCTGCAGAGTGCTGAGGGTAGGGGGCTACTCAGCAAATTCTGCAAGTGCACTTGTCGGGTAGCAGCCTAAAATATGGAAGCCAAGGCCACTTTAGAAGGTCTGCAGGAGTAAGTCCTGACTGCTCAGGAACTTCACTGCTGGGTACTCCCTCTCTATGGGACAGGACTGAGTATTCTGTCAGAGAGGAGCAAGGTAGACAAAGTCTCTAGTCACCTGTGTTGCCCTCTCCCAGGCCCCACACTGACCCAGCAATAGAAGTGTTGAGAAGGCAGACTTAAGGCTCTTCCGGCTTAGACACACAGTGCCTTTCCCTGTGAACCTGCAGAGGCCCTGGTCAGCATTTTCTGCTTTCACAG
Seq C2 exon
AAGCAGCTCACCTCCTTGACCAAGAAGTTCAAGAGCTATCATCACAAGCCCAAGAACTTCAGTTCCTTTAAGCAGCTGGGGAGATGAAGCCTGCAAAAAAAGCCTTTGGATGTCCTTGGAAATGGCCACTGATATCCTGACATTGGCTGTTGTCCAGAGTGGGCCTGGAGGTTCTGTTCAGAAGATGGCAGCGTCGGGGACTTGCATGGCTTTCTCTGCAGTGTTGAGTGACTCTTGCTGTAGCTCACTGTAGCATCCCGAAGCCTAGCCAGGCTCCCAGCTCTGGCTGCTCACCATATAGGACCACACTATATACCACAAATGCCATTATTTATTTTGATGTTTCCAAAGATCAAAACATTTTCAAACACAACTAAGATATAAAATACAGCATAAAAATGAGGTTTATACCTATTCCCACATAAAGCTAAAGCATCTTCAGAAAACTTTTGCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014873:ENSMUST00000015017:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.750
Domain overlap (PFAM):
C1:
PF054776=SURF2=FE(21.7=100)
A:
NA
C2:
PF054776=SURF2=PD(9.1=79.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATGAGAAGCCGGAGCATTC
R:
CTTCGGGATGCTACAGTGAGC
Band lengths:
354-722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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