MmuINT0140006 @ mm9
Intron Retention
Gene
ENSMUSG00000016763 | Scube1
Description
signal peptide, CUB domain, EGF-like 1 [Source:MGI Symbol;Acc:MGI:1890616]
Coordinates
chr15:83440584-83443007:-
Coord C1 exon
chr15:83442846-83443007
Coord A exon
chr15:83440782-83442845
Coord C2 exon
chr15:83440584-83440781
Length
2064 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
CTTGGCCATGGTACCCACAGACC
3' ss Score
7.21
Exon sequences
Seq C1 exon
TGCATTGCTCTCCCGGACACCACTACAATACCACCACCCACCGGTGTATCCGCTGTCCCGTGGGCACCTATCAGCCCGAGTTTGGCCAGAACCATTGCATCTCCTGTCCGGGCAACACCAGCACCGATTTTGATGGTTCCACCAACGTCACACACTGCAAGA
Seq A exon
GTAAGTGTCACTCCTACAGAAGATGGGAACACTGGGCAATGGGGCAGGAGGTAAGCAAGACCTGACCGCACGTTCTGAGAGGAGACCACTGGGCCCTGGCAAGGTGGGACAGCCCATGCTCTGCCCACTGTACAATTAACATGATTACATACCTACCTGCTCGGTGCTGGGGACATAAAAGGAAGGGACCACATAGAGATCAGGAAGATGGGTTCAGAGATTACAGACCGCTCTTACTGGACATCCAATTGGTGTGGCAGGGTCCTCTCTCTCTCTCAGGACATCTTGGATTACAAGAAGTTAAAGCAACAAGGCTGTGTGGCTACATACATGCTTGGCAGGACCTGAGCCTTAGCCCAGGCCAGACCCTGCTCTAGTTTCTGGGTACCCAGGGATAGAAAGCAGGCTCTGTGCCTGCAGGTGGCAGGCTATGAGGCAGCCTCCAAGTGCCCACCTTCAGGTATAGAAGCCATCACGACCTAAGCCATCACCTGGCATCATATAAACGCCAGAAAGCATGGGAAAATGGGGACCTGAGAATGGGCCAGTGTGGAAGGACTGGAGGAGAAACAGAAAGGCCTTGTGGGTATCTGAGAGACTTGGGTTCAAAAAAATCCAACAAACCATAGTGCAGACAGCTTGGCCCTTCCTATAAACCTCCAGCTCTTGGCTTAGCAGGATACTAAATTAGGGCTTTTACTCACCTTCTAAGAGTTTTTTCCTGCTTCTGTTATTTCTTTTTTCTTTTGAGAGTCTCTCTATGCAGGATCCTTCTATGTATCCCTGGCTGGCCTAGAACTAGCTATGTAGACCAGGCTGGCCTTGAACTCACAAAGATCCACCTGCCTCTGCCTCCTGAGTGCTGAGGCTAATGGTGTGCACCGGCAGGCATGCTAAGCTGTTTCTCAGAGTTTCACACTTCCTTCCTGACTGCTGGCCAGATCTAGAGCCTCCTAGAAGCCTTTACAAGGTTGACAATTGGGTCAACCCTTTGTCCAGGGCTGTCCCCAACTTTGCCAAGTTACCCCTTGTAGCATACAAATGAGGAGGCACCCTCAGCCACATCGTTTTAAAAGATTAATTAAATATTATATTCAGCTGAAAAAAACTTTTTAAAAATAAATTTTAAAAAATATATATGTTTTAATGAGTGAAGTTGTGGAAGCCAGATGTGAGAGAAGATTCTAGAATACTGGAGGCAGACCTGTTCCTCAGAAACTTTTTTATTTTAGATAGAGTTTCACTGTGTAGGCTGACCAAGAACTCATAAAGAGCCACCTGCCTTTGCCTCCTGCCTTGGCCTGTGCTTGGTTTAAAGGCATGAACCACCATCCCCAGGTCTCAGAAACTTGAAAGTGCACAGGAAATTTACCAGCAGTTACTATCTACATTCAGTTACCTTTGAAGAGCTAAAACTGTAAGCTTAAAACTAGGAACCAGCTGGGCAGTGGTGGCACACGGCTTTAATCCCAGCAGGGACAGGTGGATCTCTATGAGTTCAAGGCCAGCCTGGTCTACAGAGGGAGTTCCAGGACAGCCAGGACTACACAGAGAGACCAAAAAGCCAAAAACAACAAACAACAAACAAAAAAACTAGGCACCATCTAGCTCATAAAAAGAAACTGGGTGCCAGGCAGTGGTGGCACATGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAGAGAGAGAAGAAGAAGAAGAGGAGGAGGAGGAGGAGGAAGCTGGGCAAGCAACCAGGTGTCAGGGAACCCAGTGGTATCAGCCAAGTTCCTGCCCTCTAGTTCCACAACAGCAGTCCAGACAGGGCCCGCTGTGAGTTAGCACGAGGCCTCAATAGCTGGCACAGGAGTACCTGCTGGCCCCGCCCTGCACTTCTAATGCCTTTGAGGGCTAGCACACCCATGCAGCCAGCCTGACAAAGTCCCTTGGCCATGGTACCCACAG
Seq C2 exon
ACCAGCACTGCGGCGGCGAACTTGGTGACTACACAGGCTACATCGAGTCCCCCAACTACCCTGGCGACTACCCAGCCAATGCAGAGTGTGTGTGGCACATCGCACCTCCCCCAAAGCGCAGGATCCTAATCGTAGTCCCGGAGATCTTCCTACCCATCGAGGACGAGTGTGGTGATGTCCTGGTCATGAGAAAGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016763-Scube1:NM_022723:18
Average complexity
IR-S
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:
PF076998=GCC2_GCC3=WD(100=87.3)
A:
NA
C2:
PF0043115=CUB=PU(57.3=94.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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: