MmuINT1030712 @ mm10
Intron Retention
Gene
ENSMUSG00000046229 | Scand1
Description
SCAN domain-containing 1 [Source:MGI Symbol;Acc:MGI:1343132]
Coordinates
chr2:156311847-156312704:-
Coord C1 exon
chr2:156312502-156312704
Coord A exon
chr2:156312403-156312501
Coord C2 exon
chr2:156311847-156312402
Length
99 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GTTACCTCCTTCCGGTGCAGACG
3' ss Score
8.53
Exon sequences
Seq C1 exon
ATCCCGACTCAGATTTCGACTCTGTCGTGTCCGACTTGTCCGCCGGCTCCAATGGGGACCTTGCAGTGCCGCCATCCTTAGTGTCAGTAGAGCTGATGTCTACGGACTTCCCCAGATCAAACTTCACGTGACTGGTAGAGGAGGCGGCTTCCGGATTCGCGGATCGGTTCATTTCCGGCCACCGAGGAGCTTCGCGGGTCGAG
Seq A exon
GTAAGCTGGGCTTGCCCGCAGCCTGTCCTGAGTCCGCGTCCCGCTGGGGTGCCCGGGCCCTGCCCTTCAGCGGCCCTCTGTTACCTCCTTCCGGTGCAG
Seq C2 exon
ACGCAGGCGAGGCGCCGGACTGCGAAACAAAGGGGGACGCCAACAGCCGTAGTCATGGCGGCGCCGCAGCCCAGCCAGGACCCCCAAAGCCCCGCGGCGCCTCCCGAGCAGCAGGAAGGAGCCGGCGACTGTGCGGCCCCGTCGCCCGATTCCGGGAGCTCCCCGGCCCCGGAGCTCCCCGGCGCGCCCGCAGCTTTGAACACGGCGCCCTACGCTGACGCCGCCCTGCGGCCCGGAGCCTCTCGGCCCGGCCCCGAGACCTTTCGCCAGCGCTTCCGGCAGTTTCGCTACCAGGACGCGGCCGGGCCCCGGGAAGCCTTCCGGCAGCTGCGGGAGCTGTCCCGCCAGTGGCTGCGGCCGGACATCCGCACCAAGGAGCAGATCGTGGAGATGCTGGTGCAGGAGCAGCTGCAGGCCATTCTACCGGAGGCGGCCCGGGCTCGGCGGCTGCGGCGCCGCGCGGACGTGCGCATCACCGGCTGAGCGGCGGAGCCTGGGGCTCCCTGGACTGACACCCTACCCCTGAGTTAATAAAAGTTGAATTTTGACAGCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046229:ENSMUST00000079125:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0202312=SCAN=WD(100=51.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCGCCATCCTTAGTGTC
R:
GTCCCCCTTTGTTTCGCAGTC
Band lengths:
176-275
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