MmuINT0140523 @ mm9
Intron Retention
Gene
ENSMUSG00000026589 | Sec16b
Description
SEC16 homolog B (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:2148802]
Coordinates
chr1:159461411-159462304:+
Coord C1 exon
chr1:159461411-159461523
Coord A exon
chr1:159461524-159462183
Coord C2 exon
chr1:159462184-159462304
Length
660 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
TGCTTTCTCTGAGGGTGCAGTGG
3' ss Score
-1.63
Exon sequences
Seq C1 exon
GTCAGGCTATGGGGACCCCTATCAGAGGTACCACACTCCGACACCGAGGGATGAGTATGCTTATGGAAATTACTACTACCACGGACATCCACAGCTGCTGCCGGAAGAAAGAG
Seq A exon
GTATGAAGTAACCTCCAGAAGAAGCCTTTGGGGACTAGAGACGCACGGGCAGCCGGCTGCCAGGGCCACTAGCACCATGTTTGGAGACCCTGCCCTTTGATAATACTGAGACTACCCCTATGATGCTTGTTCTGTGGATAGTGCATACTTCATCCATATTTTCCTCTGATTCTTTCCTGTGGCAAAGGTTCTATTTACTGTTTATGTAACTGAAAAGTCAGTTCTTAAGCCATTCAGGTGTGCTGAGCTGTAATGTGAATGCAGCAGTCACTTCATTCTGGGCACAGCAGATGAACAGCAATGGGATGCTCATGCCTAAGACCTCCACAGGATAGGGTATCGTGCTATGACAGTTTATGACTAGCTACCATAGAGAATCTGTTTCATCATGGAAAGCACACACACACACACACACACACACACACACACACACACACACACAGCTGTTGTGAAACTATTTAAAGCCAAGTAAACTAGTTCAGAGCATCTTGGGGGCTCTCATTGTTAGCCCTTGCCCATCAACCAACTCAATGTGGCAAATACATTCTCATACCTACTGTATTGCAGTAGCCCAGCTTCACAGCTCGCTAATACCCATCTTAAAGGACTTGCAGAGGCAGCAAGTGACCTGCCTCTGTTTTGCTTTCTCTGAGGGTGCAG
Seq C2 exon
TGGCAAGGCAAGGGAGTCCTTATATCTGGCATGAAGATCATGGAGACCAGAGGTACTTCGGCGAGCATCATCGGGAGAAGCACAATGGTACATTTGGAGCAAACAGTGATACCCAGTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026589-Sec16b:NR_027641:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.897 A=NA C2=0.951
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACCCCTATCAGAGGTACC
R:
TGGAACTGGGTATCACTGTTTGC
Band lengths:
223-883
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: