MmuINT0140484 @ mm10
Intron Retention
Gene
ENSMUSG00000026924 | Sec16a
Description
SEC16 homolog A, endoplasmic reticulum export factor [Source:MGI Symbol;Acc:MGI:2139207]
Coordinates
chr2:26419621-26421456:-
Coord C1 exon
chr2:26421374-26421456
Coord A exon
chr2:26419771-26421373
Coord C2 exon
chr2:26419621-26419770
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:ENSMUST00000114082:21
Average complexity
IR
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
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
- 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