MmuINT0155262 @ mm10
Intron Retention
Gene
ENSMUSG00000014873 | Surf2
Description
surfeit gene 2 [Source:MGI Symbol;Acc:MGI:98444]
Coordinates
chr2:26917428-26919055:+
Coord C1 exon
chr2:26917428-26917531
Coord A exon
chr2:26917532-26918872
Coord C2 exon
chr2:26918873-26919055
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:ENSMUST00000015017:3
Average complexity
IR
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
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:
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
- 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