MmuINT0027149 @ mm10
Intron Retention
Gene
ENSMUSG00000015083 | C8g
Description
complement component 8, gamma polypeptide [Source:MGI Symbol;Acc:MGI:88237]
Coordinates
chr2:25499839-25500613:-
Coord C1 exon
chr2:25500094-25500613
Coord A exon
chr2:25499976-25500093
Coord C2 exon
chr2:25499839-25499975
Length
118 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
CACTCATAGTCAACTTCCAGTTT
3' ss Score
0.84
Exon sequences
Seq C1 exon
GCCAGGCTCAGCTGGGCCGGTTCGAGACTCTGCCTCTGCTCTCTCTGCTGCTGGGCTTTGAACAAGTGACTTTATGAGCACGTTCTTGTTGGTTGTGGAGTTAAAGACAGTTATTGCATGCATAGGGTTGAGCACTGACCACAAGTGGAAATAGGGGTGCAGAGGTCAACTCTTAACTTTGCACTTGGGACACAATGCCCAGCTCCTATCAAGGCTAGGTTCTAGGATGGACCCTGGCTTGGGTTAGGGGTTCAGTAATCGGAAGACAGATGTGGACTTCCTGGACTGTGCTTCCTGTGGCACTGGACAGTGGACTCTGACCTAGGACAGTGCACCCCTCCACCTCGCTGTCCTGTCACCTACTGTCCGTAGCAGGTTGGCCATGCTGTCTCCAGGGGCTGTGTTGTTCTTCACCCTGCTCTTGACAGCCAGTTCGCTGGGCCAAAGGACTCGAAAGCCTATTGGGTCTACCTCCCCCATCAGCACTATCCAGGCCCAGGTCAATTTCAGTGCTCAGAAG
Seq A exon
GTAAAATCTGGGAGTGAGTGGGGGTAGGTAAAAGAGCAATAAGAACCTGCCTAGCTTGGCGGGATTGGTCCAGGGTGCCCCATTTCCCCAGTCCTGAGCACTCATAGTCAACTTCCAG
Seq C2 exon
TTTGCAGGGACATGGCTCCTGGTGGCTGTGGGCTCTTCGTGCCGCTTTCTTCAGGAGCAGGGACACCGAGCTGAGGCCACCACATTGCACGCAGCTCCCCAGGGTGCAGCTATGGCTGTCAGCACCTTCCGAAAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015083:ENSMUST00000040042:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.033
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006118=Lipocalin=PU(31.7=95.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTTCACCCTGCTCTTGACAGC
R:
GGAAGGTGCTGACAGCCATAG
Band lengths:
242-360
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