MmuINT1012437 @ mm10
Intron Retention
Gene
ENSMUSG00000079497 | Gm13420
Description
predicted gene 13420 [Source:MGI Symbol;Acc:MGI:3649917]
Coordinates
chr2:29744919-29746593:-
Coord C1 exon
chr2:29746450-29746593
Coord A exon
chr2:29745340-29746449
Coord C2 exon
chr2:29744919-29745339
Length
1110 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
CTTGGCCTGTCTCATTACAGACT
3' ss Score
9.48
Exon sequences
Seq C1 exon
TATGGCAGCCCCGTGGCTGGCGGGCCTGCTCCCGTGCAAGTGGAGCACAGGCCTCTGCCCAAGGACTTCATGATGGAGTCGGTGCTGGTGACCCTGTTCTGTTGCCTGCTCACGGGGATGATTGCCATTGTCTACTCCCATGAG
Seq A exon
GTAGGTGACCTGGAGGGACACACTCATAAGACACAACCTCCCCTGTGGGGACTCGTAGGGGTCCCACTCAGCAGCCAGCAGCTGGCAACCGAGCCGGACCCAGGGGTGAGCCTTGTTGGATGGAGCCTGGCCCTTCTCCTCTGTCCCCCCTCCCCTCCCCCTTTTTTACCTGTGACCTCACTACCCGGGATCTGTGATGGCAATTTCTGAAACAAAAAAATGTATAAGTGATGGATGAGGCCCAAGGTGTTGTATTTCAGCATCCTTTAGTTTGCATATAATTCTGGCTGCCTCAGCTGCCCTGCTGTCTGGCAACCATCTGCCTGCCCACTACTCTATCTTGCTATCGTGCATGTATTCATCTGTTAATCCATCGCTCCACCCTCCCACCCACTAAGACACATCACTCCATCATTCAGCTACCCACTCTTCACCCATCCATCATCTATTAATTCATCTGCCTCTTTGCTTACTCACCTTCCAGTCTCTACTTACCTGCCCTCTCCATGTTCATTCACTCATTTGCATAGCTCCCTCCACCTCTACCTCACTAGCTCCCCTCCTCCCCATCCCCTCCTTACTGTTCATATGCCCAGCACTGGACTCACTGATAAAGGTGACTTAACATTCTGACAGAAGGCAAGCCTGTGTGTGTGTGTGTGTGTGCGCACGCATGTATATGCTTACAAGTAACAGCCTGGCCTTGCTGGGAAGTAGCGGGAGGTCTCAGGCCCAGGTCATCACTAGTCAGACCTGAGGGGAGCAAACAGCTCAGAGGTAAGACAGTGGCTTGTGGCTTTACCATCAGCTGTGGCCCAGGGAGGTCATTTAAGTCTGCTGGGCTTTCAGCCCCAGCACAGTGGGGTGGGGGGGAATGAGATCTGAGGGCTGCTGCTGGGTGGTGTGAGCCAAGCTTGGGTGCATTGCTCATGCGTGAGGCACCTCTTCCATGACTCCTGCGCCTCTACAAGCTTTGGTTCCCAACATTCTCAGAATGTCAGTTTCTGGCCTGTGGCCTGGGCCTAACCTTTTGGGTGTGCTGGTGGGGCTTGGGGGCGGGTAGAGGGGGATCATTTTTGGCACATCCCACCTTGGCCTGTCTCATTACAG
Seq C2 exon
ACTCGAGCAGCCCTGGGCCGGGGTGACCTGGCCCAGGCAGAGGAAGCCTCAAGGAAGGCCCGCTCACTTGTGCTCTTCAGCCTACTCTTCGGGGTCTTCGTGTCTACCAGCTGGGTCATCTATGTGGTGGTGGCCCTCTACCTTCCCTGAATCCCAGAACTTGCAGGCTAGGCTGTGCCCTTTCTGTGGACCCTGGTCCCCATTGGAGTAGCCAGCTGTTGCTCACACAGGGCAAAGGGGAGGTGGGTTCAAAAGCCCTGTCCATGAGGCCTTGGGTAGGATCCTGAGGGACACAGGCCCACGCAGCCTGGAAGTCTTCCTGGGATGTCAGCCTTCACCGTTACTCTTGGAGAACGCAGAAAACTGAAGACCTCACTGTCTTCAGAGTCTGTGGAAGGACATGGCTACCTCCAGCCCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079497:ENSMUST00000129574:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.041
Domain overlap (PFAM):
C1:
PF045057=Dispanin=PU(51.2=89.6)
A:
NA
C2:
PF045057=Dispanin=PD(46.4=78.0)
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:
GTGACCCTGTTCTGTTGCCTG
R:
GTGTCCCTCAGGATCCTACCC
Band lengths:
351-1461
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