MmuINT0140484 @ mm9
Intron Retention
Gene
ENSMUSG00000026924 | Sec16a
Description
SEC16 homolog A (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:2139207]
Coordinates
chr2:26275141-26276976:-
Coord C1 exon
chr2:26276894-26276976
Coord A exon
chr2:26275291-26276893
Coord C2 exon
chr2:26275141-26275290
Length
1603 bp
Sequences
Splice sites
5' ss Seq
CCGGTACTT
5' ss Score
5.68
3' ss Seq
TCCATCTTGCTTTGTGACAGGGC
3' ss Score
8.13
Exon sequences
Seq C1 exon
AAATGGTGCCACGGGGCTCACCTGTCAGACACTCCCCTCCGGAGCTCAGTCAAGAGGAGTTTGGCGAGAGCTTCGCTGACCCG
Seq A exon
GTACTTCCCATACCTTGTAACTGCTGTCTTTCTCTGAGTTTGTTGAGTAGATACTTTGGTTCCTTGTTCTTAGCCTGAAGTAGGAAGGTAATAAAGGGAAGGAAATTATTCTTAAATTGAATTCTTACAGAGAAAGTGTTATAAAATCATTGTGGCTGAGGACAGAGAGATGGGTCATTTGTTAAGGGTGCTTGCTACCAAGGTCATTCTCACATGGGAGAGGGAGAGAACCAACTCCTACAAGTTACCCTCTGACTTCTACACGTATTCTAACACACATGCCCCCAAGACACATCCAGATGATTAATTTTAAAAATTACTTTAACTCTTCAAATGTGAAAGTTGGTAAAAATGTTGATGGAGAAAGAGGCAAAAAAGAGAATCAAGTGTTGTAAAAGCAGTTCCTTTAAGCAGAAAGGAGACCCACCTCTAGTGAAGTTCCAGACAGAATTTTCAAAGATGGAGAACCTTCCTGATCTCTACCCTCACTGTACGGTAAAACCTGATATTTTGGTTTCCATGAAATTGCAGTCACTGCAGCACACAAGGTTTGGTATAGATACTCTTCTGTGTGCTCTCAACCAAGAGGGACAGATGGACAGTTCTTTACAGATACCCTATACTAAATGGATGTCCCATCAGTAGATGTTTCCTCATTTCAGATAGCCTCTTCCTGAGAAATAACAGGGAGGGTTTCACTGTGTGCTGATCATGCCTTCACCCAGGGCTGGATCACTTTTCTTTAAAAACTTTATTTGTGTGTGTGTGTATGCACATGCGTATGCATGCATGGGTTCCCACAGAGGCCAGAGGAGGGCATTGAATCCCCTGGTACTTGAGTTACAGGTATTTGGGACCCACTGCATGTGAGTGCCGAGAGCTGATTGCAAGAGCAGCAAGCACTCCTAATAAGTGACCCATCTCTCCACCCCCTTGATTTTATTTTGTAACATTACTGTGGTGAGGGTAGTGCATGTACCACAGTTCGCCTGTGGGAGTCCGAGGAAACTGTGGAGTTTGGTTCTCTTCTTTCACTTTCATGTGAGTTCTAGAGATGAAAATCACATTGGCAAGCCTGAATTGCAAGTGCCTTACCACTGAGCCATCTGTTAGCTCATGGAGAGGATAGTTTAAATTGGGATGTTGTCCTAACAGCACCATGCGCAGCTCACCCTCAGGGCGTGCATGTACTTCTTCTCTTGGAGTGGTGTGATACTCCGTGCTAGGTGTTTGCTGGCTGTGCTTGGCATTTCTTTAGCAGACTGGGAAAGTTTCAAAGTGTCCAGCCTGGCCGGGCGTGGTGGTGCACACCTTTAATCCCAGCACTCAGGAGGCAGAGGCAGGTGGATTTCTGAGTTTGAGGGCAGCCTGGTCTACAGAGTGAGTTCCAGGATCAGCCAGGACTACACAGAGAAACCCTGTCTCGAAAAACCAAAAAAAAAAAAAAAAGTGTCCAGCCTGCCAGCAAGCATGAATCCCTCTTCTCTGCTCTTGTCGGTTCTTTGCCGTACCAGGGAGACACAAGTCAGGTGTTCCTCCTTACCCACTTCACTTCCTCACAAGGAGCTCCAGGAGACCTGGTTTCCATCTTGCTTTGTGACAG
Seq C2 exon
GGCTCTTCCAGAACAGCACAGGACTTGGAAACCTCCCCAGTGTGGGATCTTGGCAGCTCCAGTTTGACACGTGCACCATCTTTGACATCTGATTCTGAAGGGAAGAAACCTGCACAGGCTGTCAAAAAGGAGCCCAAGGAGCCCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026924-Sec16a:NM_153125:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGGCTCACCTGTCAGA
R:
CTTCTTGGGCTCCTTGGGCT
Band lengths:
222-1825
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: