MmuINT0139977 @ mm9
Intron Retention
Gene
ENSMUSG00000008226 | Scrn3
Description
secernin 3 [Source:MGI Symbol;Acc:MGI:1921866]
Coordinates
chr2:73167820-73169214:+
Coord C1 exon
chr2:73167820-73167982
Coord A exon
chr2:73167983-73169039
Coord C2 exon
chr2:73169040-73169214
Length
1057 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
ACAAAGTCCCTTTATTCTAGGTC
3' ss Score
7.3
Exon sequences
Seq C1 exon
GAAACATAACTTTTGAAACGATGATGGAAATTCTTCGAGACAGACCCAGTGGCATCAACATGAAGGGAGAATTCCTGACCACGGCAAGCATGGTTTCTGTTTTACCTCAGGATCCCAGCCTTCCTTGCATTCACCTCTTTACTGCAACTCCGCACCCTGAGAG
Seq A exon
GTAAACTCTTCCAACACTGTAACCCCCTAGAGGTCACAGGCTGGGGTACAACCATTCGTATGCGCATGATTTTGTCAGTACGATTTTTATAAGCCGTTACTACGTCTTTTTCAAGCTTTATTTATTATTTTAAATTGTGCGTGCGTGTGACATGAATGTGCAGAGACCAGAGTCACTGGCTTACCCAGAGCTGGATTTACAGGGGGCTGTGCGCTACCCAAGGTAGGGGCTGGGAGTTGAATGCCAGTCTTCTGCAAGAGTGCTACTGAGTCATCTCTCAGTTCTTCGGTGTGAATCTTTGTTACATAAATAAGGCCGTGACTTTTAATATAGTGTCTGTTTGGATTCTAGATTTCTCTGTGTGTGTAGCTGTTGTCATTTTTATGAGACAAAAAGGCCCATGGGTCCTGTGTGGCTATCCCTTTCCCCACAAGCATATTAACGTTGTCAAGGAAAGAAGTGTCATGGTTCCTACTGATTTCAGACTTTATAGCATCCAGTGATAATAACATGAACAGCTTAAGTGACCTTATATCAGATACACTCATGTACCCTATTTAGAAAACATATTTGCACACTTTAAAATATTATCAGTCTAGTTAAGTGTCTTTAGGGTTTCCTTAACATGTCTTGATTTAAGTCACTAGTATCTCTTATAGAGTTTAATGTATGTTACATTAGGAACAATTTTTTCGTTGTTCTTCTCTAGCATTACAGTTTTTCATATTATTAACATGGTGCTGATTTTTTATGTTAAGTCATAACACCATCTGTGGCACTTGGGATTGCTTTTACCCTGGCAAATGACAAACAATGTCTTTTTCTCATATTCTGGGCCAACTGGTGGGTCTCTGGAAATGCAAAGGTAAGGAAAGCATTGTCTGCTTGCCTAAATGACACGGCACGGCAGAGGGGCCTGAGAGAAACCAATGTGGCAGGAACCGGGCACAATACAAGATCACTGTTAGACACCTCAACTAGAAGGACTCTACAGAGACAAAATAATTAATCTTTTTATACTTTGGCATGCAAATTCAACAAAGTCCCTTTATTCTAG
Seq C2 exon
GTCTGTTTTTAAGCCTTTCATATTTGTACCACACATTTCACCACTGTTGGATACAAAATCACCAACATTTGAACCTGAAAGGCCAGTGGCAAAGAAGCCATATGTCAAGCCTGACAGAAGACACCCACTCTACCAAAAACATCAAGAGGCCTTGGAAATGATAAGTAACAGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000008226-Scrn3:NM_029022:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.610
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PD(8.0=36.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACATAACTTTTGAAACGATGATGG
R:
ACTGTTACTTATCATTTCCAAGGCCT
Band lengths:
334-1391
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: