MmuINT1014655 @ mm10
Intron Retention
Gene
ENSMUSG00000109739 | Gm17949
Description
predicted gene, 17949 [Source:MGI Symbol;Acc:MGI:5010134]
Coordinates
chr17:57011469-57012795:+
Coord C1 exon
chr17:57011469-57011846
Coord A exon
chr17:57011847-57012595
Coord C2 exon
chr17:57012596-57012795
Length
749 bp
Sequences
Splice sites
5' ss Seq
AGGGTAACG
5' ss Score
6.18
3' ss Seq
TTCTTCCCTGAACACCATAGATA
3' ss Score
4.85
Exon sequences
Seq C1 exon
CGACGCAGGCACCGCGGAGCATCCTGGGTAGGGTGGAAATGGAGTCTCCTGGTAGACGCGAACTCGATCCTCTTGCGCAAGCGTAAATGTGTCCAAGAAGCGGGAACGGAGGCCGAGTTGCCATGGCAACCGAGGCCCACTCTGTGGGGTGGCTTCTTCGGCTCTTCTGGGGCGGGTCTGAGGTTCAGTTTTCTGTGTCCTGGGATATGGGGATCCCGAGGATCTTGCAAAATGAGTCCCTTGTGACGTAGAGCGGAGCCGGGGACTCGGTGCAGGGTGGAGACAGGGCCCCAGCGTACCCCGGCATTGCGGGCGGGATGGGTCTGTGCGAGTCCACGCTGCCCCAGCTGGGCAGAGCTTTGAGGCCCCAGGAGAAGG
Seq A exon
GTAACGACGTGGGGTGGTTGGTTTACATGGGCCAACGAAAGGGGGAGATGGGCAAGTATCCCCACTACCTGGGGGTGTACACCAACCCCTGCACGGAAGGAACGCATCTGCGCATGCTCCCACCTCACTGTTGGTTGATGCCTTTGGCATATAACTTGAGTAGAGGAGCCAGTGTCGGAAATGGAAAGTACTATTCTCTGGGGACAAATCAGAGAAAGGGAGCCTACGGGATGCAAAGGAGTTGGTTAAGCAGAGGGGCAAGGGAGGCACAGGCATTGAACTTGAGAGGAATGAGATAGGCTGATTCCATGACTGTCTTTGCATAAACAACTGACTCCACAGATGTGTCTAGTAGGGGAGGCATTCATTTCTCCGCCTTCAGGGAGTGCGCCTTAAGTTACAGAGGCTGGCTAGGAAGACCAAAGTGAACTGAAAGGGACAAAGAACGAGGGCTGACTGCGGAGGAGAGGAAAGGGCAGAGAGGTCTTATCCCAACTCAGAGGTTGTGTGACTAGAGGCACAAGCAGGCAGCATAGAAAGGACCGCATGGTGGGCGGAGCAGGGTGCTACTGGGTGAGTTTGAGGGCCCTCTTCTTTATCTGTAAAATGGGGTGATGGAGTCACTAAGGCACTTCATGGAGGTCTGTGCAAATGGCTCAGGAAAATCCCCACAGGGGGATGCTTCAACGTGAGTCCAGGATTTCTTATAGACTTGCACTAGTACCATCTTTCTTCCCTGAACACCATAG
Seq C2 exon
ATATCCTGAGGTATCCCCTGATCATCTTCGTGGTGGGGGGGCCCGGCTGCGGGAAAGGGACCCAGTGCAGAAACATGGCTCTGAAATACGGCTTCTACCATGTGGAGCTGGGCCAGCTGCTGCGGGAGGAGGCTCAGAGAAGCACCCAGAGGGGACGGCAGATCCGGGACATCATGCAGAAGGGACTCCTGGTACCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000109739:ENSMUST00000210548:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.045
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0040617=ADK=PU(35.7=83.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
GAACTCGATCCTCTTGCGCAA
R:
ACCACGAAGATGATCAGGGGA
Band lengths:
353-1102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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