MmuINT0013099 @ mm9
Intron Retention
Gene
ENSMUSG00000024397 | Aif1
Description
allograft inflammatory factor 1 [Source:MGI Symbol;Acc:MGI:1343098]
Coordinates
chr17:35309460-35310220:-
Coord C1 exon
chr17:35310086-35310220
Coord A exon
chr17:35309635-35310085
Coord C2 exon
chr17:35309460-35309634
Length
451 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAAC
5' ss Score
1.87
3' ss Seq
TGGGGTGCTGGTGTCAGCAGAAG
3' ss Score
2.17
Exon sequences
Seq C1 exon
GGCGCTAGGCTCAGCTCACCCCATTCCTGGAGCAGCCTGCAGACTTCATCCTCTCTCTTCCATCCCGGGGAAAGTCAGCCAGTCCTCCTCAGCTGCCTGTCTTAACCTGCATCATGAAGCCTGAGGAGATTTCAA
Seq A exon
GTAAACCCTCCCAAGCCCCACCTCAGGATCTGGGGAAAGCCACTGTCTACCGCATCCTTGGTTTGAGACAGGTTCTTACTGTGTTGGCCTGGCTGGGTTCCAACTCCCAGGATCCTCTAGCCTCAGCCTCTCTTAGGTGCTAGATTGCAGGCCTAGGGTATCACGCTCGGTCCCTCAGATCCTGGTGCCTTTCCACACCTCCGGGAGCTGATCTAAGTCTTTCTCCCACGTACAGTCTGCTTCTTTGGAGGAGCTGTGTGGAGCTAGGTGTGTTACAGGGCTGTAGCTCCAGCCATCTGGGAGGCTGAGGCAGGATGGCTACTTCAATTCTCAAGAGCCTGGATAGGAGACCCTGCCCCCACCCCACCCCCAAAGTAATTTTTCAGCACATTACTTCTTCATCTCCTCTCTCAACCCGTTCTGCCTTCTCCTGGGGTGCTGGTGTCAGCAG
Seq C2 exon
AAGCTGATGTGGAAGTGATGCCTGGGAGTTAGCAAGGGAATGAGTGGAAAGGGGAAGTGTGAGAACGGTCCCAGAAGAGACTGGGGAGCTGGTGGAGAGAGGACCCAGCGGACAGACTGCCAGCCTAAGACAACCAGCGTCTGAGGAGCCATGAGCCAAAGCAGGGATTTGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024397-Aif1:NM_019467:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.562 A=NA C2=0.632
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCGCTAGGCTCAGCTCA
R:
CCTGCAAATCCCTGCTTTGGC
Band lengths:
310-761
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: