MmuINT0140056 @ mm9
Intron Retention
Gene
ENSMUSG00000038677 | Scube3
Description
signal peptide, CUB domain, EGF-like 3 [Source:MGI Symbol;Acc:MGI:3045253]
Coordinates
chr17:28294018-28297873:+
Coord C1 exon
chr17:28294018-28294134
Coord A exon
chr17:28294135-28297756
Coord C2 exon
chr17:28297757-28297873
Length
3622 bp
Sequences
Splice sites
5' ss Seq
TTGGTGGGT
5' ss Score
4.3
3' ss Seq
ACCTACACTTCCCTCAACAGAAA
3' ss Score
9.16
Exon sequences
Seq C1 exon
TGACCTGCAACTATGGTAATGGCGGCTGCCAGCACACCTGCGATGACACGGAGCAGGGTCCTCGGTGCGGCTGCCACGTCAAGTTTGTGCTCCACACCGACGGGAAGACATGCATTG
Seq A exon
GTGGGTGAAGCCACTTGTGACAGGATTGGGGTGGGGTCTGGGACGGAAGGGGAAGAGAGACCCTGGGGGACAGTGATGTCTAGGTACTGGATAGTTACTGATGTGGGAATGAAGACCAATGAGAGGACAGGTGGAAGGACCACTCTGAGAGACTAAAGGGCACACTTGACTACCTGCCCTCCCCAGGAGTCCCACCCTCCTCTTCCTCCCATGTTGAAACATTACCAGGTTCGGAACTGTTAGCAGGGGTGCTGGGCAACCAAGGCTTGAGGAATTCTGGGGCGGTCAGCTGAGCGGCTGACCCAGTCTCTGGTTGACTAGTGTGGTAGGGGAATGACCACAGCCAGTGTCCCTGCTGTGAACTGGTGCCAGGACACAGTAGTTGCTTCCAGAGCAGTTAGCCTTGGGCTGAAATGAATCAGTAGGGTGGCTCCAGCCCCTCTCTTCCTCTTTACCCTGGCAAACCCCCTTCCTACCCCTCACCTGATGCCCCAGGCCCACCTCACACCCAAGCATCTGGTGGTACTGACTTTCCAGTGTGCCTGTGGCTGCCCACCCCCCCTCACTTGCTGCAGCCTTCCCGTCCTCTAAGCCTGAGACCCTTCTTGAATTCCTAGGCCTGACCTGACTCTCCAGGTTCCTGGATGAGCTAAGTCCTTAAAGTGAAGGTTGAATTCCTTCCGTTGCTATTTCTTGAGCGGTGAGAGGGCTGACAAGATGTCTTCTTGGAGAAGTGGGGAGTGAAAGGCAGGGCTCTGGCTGGGCATGAGGCAGGGCTCGGGCCAGTCAGAGGTACTTGTGCTTGGGCTGTGGACAGTGGTGCTTATGGAGGTGTGTGTCACTGCAGCCACAGGACGGGGATCAGACAGGCTCACAAGATACACATGCTTTCAAAGGCTGCTGGAGCCGAAGCTCTCCCAACTCTGCTCTCTAACTCTTCTGAGACCCCAAGACAGGCTCAGGGCTTCATGCTGCTTTTTCTGACTGCTGTTCCAGCTCCCTTCTTATTCTCCTGACAGGGCTAGTTCTTCTGCTTTGCAAACCTCCCACCACCCCCTGGACACACCACAAAGCCTCCCCCCCCCCATTCTTCCAGAAGGAACTGCATGGGGAGAAGATGCACGAGGCAGGACAGAGGCCCCTGGGGCAGGAGACCCTGTTCCCTTGTTCTCAGACGGCTGCTTTGTAATTAGGCTTGAGCTCTCTAACCCCACTGAGACCCACTGAGTCCTCTGGGCAGAGCAAGTGATGCTCCTCCCTCCCCATCCTTCTCCCTTTGCCCCCAGGGAGTGAGCCTACTTGCCTTGGACTTAATTTTTCTTGGCAGGGGGAAATGTCACTGGGGTTGTGGGGACATGCAGCTTGAGTGGCGAGACAGGAGTATAGTTAAGGGATTTAGAGGTGGCGAGATGCGAAACTTGACACCCGTGCCAGTTTTGCCTGGCATGCTGTGCGTGCTATGCGGGGGTTGGACCCGCAGCTGCTCTCTCCGAGACCCAGCATCTCTGCTTTATGGTCCCTTGATGGGGGCTTGATTTCTTTGAGGGTACCAGGCAGGACAAGGCTGAGGAGCAAGGCTAATTTGGGATCCCTGGAATCACCACATGGGGCTAGTGGTTTGGACCGTCAGGGTGGAGGGTGCGGGGTGGGCCTTGCCCCAATCTAAACGGCTTTTTTACAATGTCAAACAGGGGAAAGGCGGCCAGAGCAGCTCGGGCCCACTCAGGCCGTTTCTAATGGTAAATATGCCTGCCCTCCCTGTGCTTGCTAGGGAAGGGCTAACCCGCTGGGGCTCCCACTAACCTTGCATGCCCTCCAGGGCTCCCCTGGCAGTGCGGGCTCTGGACCCATCTGGTGGCCTAGGAAGCTTCCTGCTGGTCATCTTCCTGGTCCCTGGCTCTCCTTCTTATGCCTCCTCCACCTCTCATTGCCCTGGTCGGTCCCTCCCAGCCATGTGCACCCCTCGGTCCCTGCAGCCAGTGCCATCTTGCCCACTGTTCGCACTGTGGCTGAGGGAAGTATCTCAGAGCTGAATGTCATCTTCTCTGTGGGCCACCCTTCTTGGGTTCCTTCCTTTCTTTAGCACACCACACAGCCTCAGCTGGTGATTTCTGCCTGACTCTGGGTCCCTCACCAGCCGTCTTCTCTGAGCCCTCAGCCCACTCCTCTGGAGGAGGGGAGTGACAGTCTTCCTTCTCTTGGGTGTGATAATTATCATGTGGTCCACGCCTGGCACAAAGGACAGGTCGAGCTGTGCCCTCCTCCCTGTGCTCAGCCATTGTCCCGCAGAGCTGAGCATCTCTGCCCAGCTTCTTGGTCCAGCCTGGGGTGTATGCCATGCCAGTTCTGTTAGCACCCATCCTGGCTGCTTCAGAGGATCTACACACAGACAGCATCTTGTCCCCCACTGTGCTTCTCCAGGCCTTGGGAGCCCTCGGTCCATACTTAGAGCACTTTTGGGGGAGTCTGGACTTGAGCTCCTCGCGGTCTGGGGGACCTCGGGGAGACCACAGTGAGACCAGGGCAGGCCAAGGACTCCCAGGCAGAGGTGGGCTTCTTTTGGAGCCCTGGCACACTGCCCACTTTGGGGACAAGGGTGGGCCTAACATCCTCATTCTTAGAACAACTCTTCTCTCTTGTCCCATGGAGGCCTTAGGATGCCAGTGGGAGAAGACTTGGTGCCTGGGACAGACCACAGCACCCAGGTCCCCATGCCAGGCTCTTGCTGTCCTGGGGCTGATGGCTTTCCCCAGAACTCTCTCTCCAAAGCAACTGTTTAACATCTGGTCTCCTCCTGCTCTGGCCTCTCTGCCACAGACTGAGCTGACAGGAGAGACCTAGCTGAAAGCTCTGAGCTTTCTCTTCTGTGTCTTCCACCATCTCTCATTCTTTCTCTGGATTCTTCTGCGCTCTCCCCCCCCCCACCCCGCCGCGCCCCCCCCTTCACAAAATATCTCATCAGCAAAAGCAAAGAACCAGAGAGCCACCGTGTTTCCAGGTAGACAGGAGGGTTTGGGGAGGAGTGAAAGGAGGGTGACCCAGGGCTGCAGTGTCAGAAGGGTGGGAGGGGTTGAGGGGGGGTGGAGGGTAGGGGATAATAGGGGGTCTTGGGGGTGAATTGATGGGGAGCCCTTAGGATCTTGAGACACTCTTTCCTCGAGGCCTTTTAGGAGACTGTCCATCACAAACACCCACACTCATCCTCAAGATAGGAGGATGAAACTGGTCTACCCCTTCTTTTCCCTCAGGCCTTAGGATGCTAATGCTCCGATGCTCGGTGCCTAGGACGAGCCCTCTTTAGCTTTCCTCTCCTGCTCCCCTGCCCCCACCCCCAGCACATTCCTGCCTGACAGCTCTGGCTTGTACCTGCCTCACTGCTGCCCACCTTGTTTCAATCAAGTAGGGGGCAGGGATGCTGAGCGAGCGGAGCGCGAGAGAGAGAGCGCTTCCTGCACTTGTGAGGGGTGGGAGGAAGGAGAGGCTGGAGCATCGCTTAACGCTCCTGCTGACCCCCCCCCCCTCCACCCTGTGAGGTGGCTGAGGGCTTCCCTCAGGCCCCATACCTGAGTCTGACATTCTTCTAGGCTAGTAACCCTATTACCACCTACACTTCCCTCAACAG
Seq C2 exon
AAACCTGTGCTGTCAACAACGGAGGCTGCGACAGTAAGTGCCATGATGCAGCGACCGGAGTCCACTGCAGCTGTCCTGTGGGTTTCATGCTGCAGCCAGACAGAAAGACCTGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038677-Scube3:NM_001004366:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=90.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=90.0)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
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: