MmuINT0155262 @ mm9
Intron Retention
Gene
ENSMUSG00000014873 | Surf2
Description
surfeit gene 2 [Source:MGI Symbol;Acc:MGI:98444]
Coordinates
chr2:26772948-26774575:+
Coord C1 exon
chr2:26772948-26773051
Coord A exon
chr2:26773052-26774392
Coord C2 exon
chr2:26774393-26774575
Length
1341 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TGAGCTTGCTAGTCTCCTAGATG
3' ss Score
0.1
Exon sequences
Seq C1 exon
GCACCAACTGTTCTGCAAACTCACCCTGAGGCACATCAATAAGTCCCCAGAACACGTGCTGAGGCACACCCAGGGCCGGAGGTATCAGAGAGCACTTCATCAAT
Seq A exon
GTAAGTCACCCCCCAGAAGCTCAGGCCTTTGGATGCATGCTCCCTGCCCCCAAAAAGCCAGAAAGGTGCCTTGGCCATCACTGATCCTTTATTGATGCACTTGCCTGATCTTGCACAGTGAGAAGGCAAAGCCAGAAGTAGGTGGGAAGGAGTGCGGTGGAGGTCTGATATTCCATAGCAGGGACAATCCTAGGGTAGCTCCCAGGCTGAGGCTGCAGTATTCTAGTTATAGGACAGGTCCATAGTCATCTGATACTGCAGGAGAGCCTTGAAGACTGTTCTCAGGAGCAGGATTGGTGCAAACAGTCCTGCAGGCTCCAGAGGGTGAGGGGTCTTGCAGCTAAGGGGTTGGTGGCTTGAGCAGGAAAGGGGACTTGCAGACAGCCTCCAGTATTGTTGGGTATAGCCAGGGGTGGGAAGGCATCCCAAGTCATTGAGAGTAGAGACTCCTGGGGTTAGGGACAGAGAGAGGATGGGGCCAGCTTGAGCATGAGGGAGGTGAAAACCTCCCATCCATGCTACCACAGGAAGATGAGGGTAAGAAAGGGACTGGGACTAGGTAACTTGGATGGAGGAATGAAGCAGGGAGAATGGAGGGTTGGGGTTCGCAGAGGCTGGGGATGAGTGGGAGGCTTCAGGGACTGCATCGCCTGTCCTGCCCTAACAGGCAGACTTCAGTCACAGGGTGGGAAGGTAAGGAATCTGTCAGTTGTCTGCTGGTGCAGAGTTGGCACCTGGGCTGCACTGACCGGTGGCAAGCTAAGGTTTGGCTGTTGTACCTTTGTTAGCTTTGTCATCTGCTACATTTTCACAGGGAGGGCTGTACAGGAATCCCCATGATTATAAAGATGTATCAAAGAGCTGAGACAGAGCCAAAACACAGTGAGGCCGGTTAGGATGGCAGGCTGGTTACCGTAGCTAATTGGCCTGCTGAGAGCACTGGGAGGAGACCACAGTGGTCCTAGAAATAGATGTCAAAGATGAAGCAGGGAAGACTGGAGATAGCAGAGCAGTTGGTTCTATCAGATGCCCAGTCCCAATTAGACTGTTACTCATGAGCAATGAGCTGGTATCCCTCACCTATGGAGATGGTGCTGGCCCAAGAAGTTCAGACTCCTCAGTACCTGAGGACAGCAGTGGTGACCCTAGTAAGTGCCTTCCCTGAAGCCTCATTCCCGCGCCAAGTTGAAGTGAAGCCAGGCAGTTTCCCCTGAGGTCCACAGCCTTTGGCTGCCCACCCCTATCTGGTAGGATAAAGGAACAGAACCATGGCACAATACAACCCATAGCTTAGCTGTGCACCAAGAGGGTACCAGTGTAATGAGCTTGCTAGTCTCCTAG
Seq C2 exon
ATGAAGAGTGTCAGAAACAAGGTGTGGAATATGTCCCTGCCTGCCTTCTACACAAGAGGAAGAAGAGAGAGGACCAGACGAACAGTGATGAACTCCCAGGCCAGAGAACAGGTTTCTGGGAGCCAGCTTCCAGTGACGAGGAAGACGCCTTGAGTGACGACAGCATGACAGACCTATACCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014873-Surf2:NM_013678:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=0.677
Domain overlap (PFAM):
C1:
PF054776=SURF2=FE(13.8=100)
A:
NA
C2:
PF054776=SURF2=FE(24.1=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GCACCAACTGTTCTGCAAACT
R:
TGGGTATAGGTCTGTCATGCTGT
Band lengths:
286-1627
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: