MmuINT0070053 @ mm9
Intron Retention
Gene
ENSMUSG00000078520 | Gm13011
Description
predicted gene 13011 [Source:MGI Symbol;Acc:MGI:3651647]
Coordinates
chr4:136960300-136961630:-
Coord C1 exon
chr4:136961496-136961630
Coord A exon
chr4:136960437-136961495
Coord C2 exon
chr4:136960300-136960436
Length
1059 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
GGACTCCCCTTTTCCCCCAGCAA
3' ss Score
6.65
Exon sequences
Seq C1 exon
GCCTTATCTCAACTACCGGGTGGTACTTGGGGAGCATGAACATGGTGTGGAGGAGGGCTCAGAGCAGGTGATCCCCATCAATGCTGGAGAACTCTTTGTGCACCCCAAGTGGAACTCCGAATGTGTGAACTGTGG
Seq A exon
GTGAGTGAAGTCTTGGGTGTGGAGTTGGGAGTTCCATTCTGCAAGATGCCAAGCCACTCGAGAGCTTACTGCCGGGGTCAGCTGCCTGAGTCCAAGTGGCATGGGCTGTGGGTAGCTGCAAGAACTAAAGAATGGTGGCTTGCCAGGCAGGTGGCACACTTGTGAGGCAGAGGCAGGCGGATTTCTGAGTTCTAGGCCAGCCTGGTCTACAAAGTGAGTTCCAAGACAGCCAGGGCTATAGGGAGAAACCCTGTCTCAAAAAAACCAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGACAGAAAGAAAGGAAGAAAGAAAGAGTGGCTTAAGGCTCTAGCCCATCGTGGCCAGAATCCCAGAATGAGCAGAGAGGTAGATCAGACCCCAGTGAAGTGATTTAAGCGGTAGCTAGATAGTTGAGGTAGAAAATAATGGTACCTACAGTGTGGTACATAGGCAACAACATCTTTCTCCAGGGAGCTGTCAGACATCAGCCTAGACCATTTCATTGGGCAGCACTAGGGTAGGGGGCAACTGTGACCCTGGTCCTTCCAGATGACATAGAGGTGTCAAGGGGACCATAAATGACAAGGTCAGCAGGGATAAAGTGTCTGTGAGGATGCCCGGGGCTGGTCCACTTTAAGAATGGATTTTGGAAAAGACATGTAGTAACATGCACCTTTTATCTCAGCACAGGGAGGCTGAAGCAGGTGGATCTCTGTGGGTTACAGGCTAGCTCAGTCAACATAGGCTAGCTAGGGCTACATAGTAAGACCAACTCACCAATGAAGCAAAACAAATGACTTAGGAAACACCAGAGAGTAGCTCGATCGCACAGTACTATTCTAGCACTTGCAGAGCTCTGAGTTCAAGCCCCAGCACAAAAAAACCAATGAGTAAACGGATTCAGAATTCAAGGACCAATGGATTCCCAGAGCTGAAAGTCCCTGGAGCAAAGGAGATAGGTGCATGCTAGCTGACTGGATTTCATGGGACTCCCCTTTTCCCCCAG
Seq C2 exon
CAATAACATCGCTCTGGTCAAGCTCTCAAGAAGTGCCCAGCTGGGAGATGCAGTCCAGCTTGCCTGCCTCCCTCCTGCTGGTGAAATCCTACCCAACGGAGCACCCTGTTACATCAGCGGCTGGGGCCGGCTCTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078520-Gm13011:NM_001126318:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(18.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(18.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTATCTCAACTACCGGGTG
R:
GCCCCAGCCGCTGATGTAA
Band lengths:
262-1321
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: