MmuINT1017159 @ mm10
Intron Retention
Gene
ENSMUSG00000103393 | Gm38304
Description
predicted gene, 38304 [Source:MGI Symbol;Acc:MGI:5611532]
Coordinates
chr1:162025544-162027106:+
Coord C1 exon
chr1:162025544-162025656
Coord A exon
chr1:162025657-162026699
Coord C2 exon
chr1:162026700-162027106
Length
1043 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
TTTTTTAATTTCAATTTCAGTAT
3' ss Score
8.58
Exon sequences
Seq C1 exon
GAGAGTCCAGAGGCACAGCCTGAAAAAGCTGAGTATCAGTGCTGTGGAAATGAAGGCAACCCTTCGCATTCCTGTGACTGAGTCTTCATGTTGAGCCCTTCTTCGTGGATGAG
Seq A exon
GTAAAGAACCACGGAGGTACAGCACGAATTTCATTAACCAAGCATCTTGACTACAACTGAAGGTGTCTCCACATTTGAATTGTGGTTGTGGTCGAAACACTTAGCAGCAGGAGGAACTTGGGGCTGCAAGAAGCATTCCCCAACCCAGGAGGGAAAGCCCAGGCTAATGTGACACAGGTTACCCAGCACATCCTTGCTGACAGGCTGGGTCAAGCTCTGTGGGTTCAGCCACTTTCCTTTCCATTCTTCTTTGACTTTTCAGTTACTTTACCTGAATATTTGTTTTTATTCTCCGTGTAGTTTTTAACACATTTCTAAGTAATATCATAATAAATATCATAATAAAAATGATAAAACCGCTAATTAAACCCTTTGGAATTTTCAATACATGTAATTGAAAAAATGACAGCAAGAAATGATAACGAGACATTTTAAACTGAGGAGCGAGTGGCTTTGTGTCTTTTTCTTAACTCTCTCCAGGTCAAAGCTTGCTGACTATGTTTGATTCTGTGTCCCGCCAGTGTATATCTCTGTGTCTAACAGGCAGCTTAGATGACAATTGAAGTGATTAATTGGGGGCTTGGAGGGCTTATAATGGCATTTACATTTAGAATCAATAAAATTGCTTTTATAAGTGAAAGGTGGAGATGTCTTGGGACAGTCTAAAAATCTTATACAATGGATTCTGAAGTTCTAGATATAATTCCCATGGCTCCTCTAATCTAGCCCAGTGCTTCTCAACCTTCCTAGTGATGCGACCCTGTAATACAGTTCCTCATGTTGTGCTGACCCACAGCCATAAAATTATTTCATTGTTTCATAATTTTAATTTTTTGCCACTGTTATGAATTGTAATGTAAATATCTGATGAGCAGGCTATCTGATATGTGACCCCTGTGAAGGGGTCATTTGACCTCAACGGGGTCATGACCTGCAGGTTGAGAAGTACTGATCTAGCTGAACGTCCTATGGCCTTATGCAACAAATAAGCTCATGGATATGAAAATTTCATGTCAAGTATTTTTTTTTAATTTCAATTTCAG
Seq C2 exon
TATGCATGTGCTAGAATTGTTGAAGCTAGACTTTCAAGTAGCTGTGAGCCACCTGAAGTACGTGCTGTGACCAACTGCAGTCTTCTGGGAGAACAAGTGCTTTTCACTACCGAGCCTTACCTCCAGACCCTCATGGTAAGTAGTTTAAGTTGTTAATATTTATTTTGGGATGATCTCAGTCCTTATGAACTGACTTTGTTTGCCATTAATTAACATCTTGTCACACAAACAATAGACCAAGTGCTTCAAGAATTTACCCTCAACATCTTTATCTAAAATGTTTAATTGTAGGAAAATTTAAATTATGATGCATTAAACCCTTACACACACACACTCTTGCTCTTTTGAGACAAGATTATGCTATATAGCCCACAGTGCCCAGGTTGATCTTGAACTCCTGATTCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000103393:ENSMUST00000161826:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
GAGCCCTTCTTCGTGGATGAG
R:
AGAGTGTGTGTGTGTAAGGGT
Band lengths:
358-1401
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