MmuINT0070147 @ mm10
Intron Retention
Gene
ENSMUSG00000075425 | Gm13547
Description
predicted gene 13547 [Source:MGI Symbol;Acc:MGI:3650473]
Coordinates
chr2:29761528-29763502:+
Coord C1 exon
chr2:29761528-29761806
Coord A exon
chr2:29761807-29763394
Coord C2 exon
chr2:29763395-29763502
Length
1588 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTG
5' ss Score
4.87
3' ss Seq
CCTGCTCTGTTCTGTGACAGGTG
3' ss Score
11.34
Exon sequences
Seq C1 exon
CACAGACTTCAGACAGTGACTCCCGCTAGGACAGAGATGGCTTCCTCTGGCCATGATGTTAGTACTTCTTTCGTGATTCTCATTCCCCGAGAGACATCTGCCAGACGAAGGAAACAGGCCTCAGCCCTGCTGAAGGAGGAGACCCGAGTGAGGGCCACATCCTGCTGGAGTTGGGTATGGGGAGAGGAACGGAGAGAGGCAAATGAAGACAATCAGTTAGAGCCGAATGGCTTTGCAGTCATCAAAGCTGACCCTGGCCAGGTGTTCTGGTCTGCTCAG
Seq A exon
GTGCTGGGGCTTAACCTGTCAGCTCAGAGGTGGCACGTGAGGTGGGGGCAGAGGGATGGGGCGGATGGGAAATGACTAGAGGAACTACCAGCCATTTATGAGACTTTTGCTATCCTAAAGGCCTGAAGAGCATCCATTCCTCGCTGGGAAAAGTCTGATCTGTTCCAGTTTCCTCAGAGACCATTCAGACCAATCCCTTGCTCTGTGGCTAAGAACTTTGTGGTTTTAAACCATCTCTGAGGTTAATGGATGGCTTTCTGGGCCAGCAGGACTGCTCAGTGGAAAGACACTTGCTGCAAACCCTGCAAATCTAATGTCCATTCCCGAGACAGAACTGACACCCGTGCCTGGCCGGCTACTGTCACCCTGCTCTTCTCTATTAGATTCAACCTCCCGGATGCTGCAAGCCAAAGGGCAGCCATTGTTCTCTGCTTTATCCAGTTGTTTCTGAATTGACAAACACAGCCAGTGCGTGGGTCTGGGAGGAGGGAAGGCAGGAAAGCAAGAGAGGGGAGAATGGTTATGTTGACCATGACGATGAGTCTGTCCCAGGAGCAAGGCCTATAGTCGGGGCAGTTAGCTCTCTGCCTCCTGGACTTGGCACGTGTACCTGCTGTGGCTGCCACAGGTCAGAGCTCCAGAGGGAACTAGGTCCTTGGGTGTTCAGGAAGGAGACCCTGCAGCTCCTGCTTTGAGCTCTGGCCCTTCAGAATGCTACCAGGTGGCCTGAAGCCTGGGCAGGCATGTCTGTACCCCAGTAGCTCCCAGCATGTGCGACTGTCCTGTGCCTGCTGCTCTGCTACCCCGCTTGCCCCGTCCCCTCATGTCCATGGGGCACATGGGCTGCGCTGCCAGACAGGCTAAAGAACAGGTGTGGTGGGTGTGCTCACACCCTGGAAATCTCAGAGATCTAAGATGGTAGGAGAGGATCTGTCCCCTCACAGCCTCTCATGCCTGCTCTGAAACATGTAACTACACCACTGAGAGGACCACGGGCAGTCAGCCATAGAATGCAGCATATGGAGTCCTTCCCCCATGCAAATGGTAGAGCATCACCAACATCCCAAACTTGGCCAATACGAAACCTTTACCTGCCCCACCCCATCCCATCCCACCCCACTCCCCAAGGTTCTTGTAGTCCCTGTCCACATGGAATAAAGCACACAAGTTACTTCACCAAGGATCGTTTGAAAGTGGCTGTCTTTACTGAGCTGTAACGCTGGAGAAGAATTCTCTCTCTCTCACAGAGCCTTTATCATTGGATCTTGGACCCGCCTGGCTGGCCAGGTTCCCACTGCCTGCAGAGGCTCACATCAGAGTGGCAGCAGCTCACACCACCAGTGCAAGCCACCCAAACTCCTTTTTTCCCTCTTTTAAGAGCTGGGAAACTCCCAGCATTCCCAGCTGAACCAGAGTCCAGTGGATGTTCATGCCAAACTGCGCTTTGCCATCCTCGGTCTGGTGTGCAGATATGTCTGATACCCTAGAGGGAAGTGGGCAGACTGTGGACCACGAATGTCCATGGCAGTGAGGAGCCTCTCTCCCACGTGGTCTTCTAATCCTTCACCCCTGCTCTGTTCTGTGACAG
Seq C2 exon
GTGCCCACGGATGGCACTGCTCCTGCACCGCCAACCACTGATGACACTATGTTTCTTGGTGTCGTTCCCTGCCCAGATGCTGATCTCATTAGTCGGGTATCACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075425:ENSMUST00000113810:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.321 A=NA C2=0.583
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGACAGTGACTCCCGCTAG
R:
GCAGGGAACGACACCAAGAAA
Band lengths:
343-1931
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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