MmuINT1014592 @ mm10
Intron Retention
Gene
ENSMUSG00000079669 | Gm17396
Description
predicted gene, 17396 [Source:MGI Symbol;Acc:MGI:4937030]
Coordinates
chr9:117252536-117254696:+
Coord C1 exon
chr9:117252536-117252838
Coord A exon
chr9:117252839-117253344
Coord C2 exon
chr9:117253345-117254696
Length
506 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TGCTTTCGTGGCTCTGTAAGTAT
3' ss Score
0.89
Exon sequences
Seq C1 exon
ACTGAGAGAGCCTCTCCAGGGAGCCGGGCACGCAGTCCAGAAGGCTGCAGTATTTCCTCCAAGGGGGGAAAAAGAAGATGAAAAAGAAGAAGAAAAAGAAAGAAAGAGGCTGCTGCCACCCCTCTGCTAGCTATCTGGAATAGCACAGTGAGCAGCGTCTGCAGCCGAGCCGCGGGTGGAACCGAACCCCAGCTTCTCTGTGAAGTGCCTGGGTGGGGCATGGCCCAGCCTCCCTGCCCTGCTCCGACCAGGGCTCCCAAGCTCCCAAGCTGCTTCTCCTCTTCAATCGCCAAGTTCCCAGAG
Seq A exon
GTGAGGCATGGCATTGATGAACAAAACAGACCCTGCCCTGCGAGGGGAGCATGAGGGAAGGAGAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATTTACACACACATGCCAACCTTTCTAGTTAAGTAGGGAGAAAAGTGTATTCAAGGCTTTTTCAAAATCTGTTAACACATTAAAAGCCAGATGAACCGAGGACCTGAAGATGAAACCAATGTTTTGGGGGATGCTCAAGAGAGGAGAAAAAGTGGGGATTCTCAGCTGGGTACCTCTGTGGGGAAGCCAAGCCCCATCTCAACAAGGGGGTTGCCTTAACTATCACAAATAATTGTGTTGTGGCTTTATCCATCTCTTAAAAACGAAATCAAAGTGATCTTTACATTTATTCGCTTATTGGAGAATAAAATAACCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTTCTCTTACTTGCTCTTTCTTAATGCTTTCGTGGCTCTGTAAG
Seq C2 exon
TATTGCACACAAAAAAATTGAACAAAAACTCATAATTACTTGTCAGAGTTTTTCCCCCCACCAGTAATAATATTCCGACACGTCGATCAGCTGCTACATTATAATACAGATTGTTTCAGAGAAGATAGATCTCCTTAAAGGGTTTCTCTGCAAGGCGGCGGTGAGGCTAAAATTAGCTGTGCCAGCTGTGTTTTGCTGGGAGTGCTCACGCATGCCCGGAGCGTGGGCAGCCAGCCTCTGTGCCTCTCCACTCCCCCAAGTCTGCCGAACACTCCAGCCGTCCTTTCAGATAAAAGACTCCAGGTACAAAGGCAGTTTCCTCACATGGAGGGAGAATTGAAACTGCAATACACAGGATGCCACCTCTGCTTTAAGTCCCGCCTGCCACTCATGGGGTAACAACCTAGGCTCCTGTGCTCCTTAGCTCCAGGAAGCTCAGTTCTGAAGTCTGGGTACCAGCAGAAAGACAAGGACACGGAGACATCACATTGGGTTTTATGTCGATTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTCTCTTTTTTAAAAGACAGGGTCTCAGATACCCCAAGCTGCTCTTAAAACTTGCTGTGAAACGGAATGATTTTGGCTTCTGATTCTCCTGCCTTCCATCGCCCAGCACTGGTATTGAAGGCATAAATTAATGAATGAACCAGGTTCCTGTGGGCACTGGCTGTGGAACCTAGGACCCTGCCCACAATGGGCAAGCACTCTACCAACACAGCTATCTCTTGATGACAAAAATCAGAACTTGGGTTGGAAAGTGGGTATGGGACACCTGTGATGGAAACATATCAAGACAGCTTCACTCATGGACCTCAATTATTCCATCCATAAAATGGAGAAGGACAGCAACTGAAATCAGGCACCAATCTCAAAGTCTTCTGGCCACATCTCCCTCTCTAGAGAACTTGTCAAGCATCTGGGAATCTCGTTGTTCCTTCCTTTCTGCTTGGTATCAGACTGTAAATTCTACTCTTCACACTTCATGGTCCAGCTCTGAGTGCCACTGAGCAGAGGTCATGTTGGTGATCGCCAAGCTCACACCAGGCATCCTCTGCCAGCATGAACATGCCCCCCTGAAGCAGTCTTCCTGAAACCCTCACTTCCCAAGGTATAGTTGGTTTTCCCCAAGTTGGTTTCTCCCACGACCTTCTAAACTCAGAACAGCAGGCCATAGCCTCCTCTGTAGCCTTAAGAACTAGCAAGGCCAGACACAAAGCATGTGTTCTGACATGCTTGGAGAACAAAATATCCTGGACATAATAAACAATTTGTCCCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079669:ENSMUST00000172075:1
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
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:
TGGAATAGCACAGTGAGCAGC
R:
TAATTTTAGCCTCACCGCCGC
Band lengths:
343-849
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