MmuINT0146577 @ mm10
Intron Retention
Gene
ENSMUSG00000061171 | Slc38a11
Description
solute carrier family 38, member 11 [Source:MGI Symbol;Acc:MGI:2443383]
Coordinates
chr2:65358054-65361401:-
Coord C1 exon
chr2:65361327-65361401
Coord A exon
chr2:65358189-65361326
Coord C2 exon
chr2:65358054-65358188
Length
3138 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TTTGTTTTGTTTCACTACAGACT
3' ss Score
8.58
Exon sequences
Seq C1 exon
GATTGCCTTATTCAATGAAGCAAGCTGGATTTCCCTTGGGAATACTGCTTTTATTCTTGGTCTCATACATCACAG
Seq A exon
GTAAGTAGCATATAACTGCATATCCCTACAACTTAAGTTGTGCAATGACTTCTTCCCTTGCACAAATACATCCTGCAATTGGATTTCCTACTTCATTAAGAAGCGCATCAAAGCGGCCTAAGGAATTTAAGCACCACATCTGAGGAGATTTGCTTTCCTCCCTAATCCTTTAAACAGATTAGTAAGAGTAGCGCAAAGCTATATCACAAAGCTTAAAGCTGGTCATGTGGTTTTTTCACTTCGAGCAGAACATGGCGAATGAGAAAGTTGTTTCCAAGACTGGTGGCAGCTGAGAAGACACTACTCCCCAGTGCCCAAGGCAGAGCTATGTGGCAGGTGCATGCAGATTGGCAGCCATTGTTGGCTGTGTTTGTGTAGGTGATGCTGGGGGTTTGGGTGTTCAGCTGGCAAGGCCAGCCCCTTCTCTCCAGTGCTGCCCGTGTGTGCTGTGTCTGCCAGTGCCTGCCTGCACAACAGAAAGCTGCTTCCAGATTGCTTTCTCTTCTACTCCCCGCTCATCCAACATCCATCTTCGCCCACAGGTTGCCACTCTTCAGGTAAAGGCAAGTTCAGCACTCAGACCAGGTCTCCTTGCTATAATTTTCAATCCAGCCAGTTCCGCCATCCCACCGGCTTACTTTGTAAAGCTTTTCTCTGACTTAGGATCACTGTGAAAGAGCCAGCAGTCATTAACAGATACAGAGGGCTTTGTTTACATTTTTTTGTTTGGTGTTGTTTTGTTGTTGTTGTTTCACTGTGGTAACAGTTATCAGTGGTGATCTAGATGGATGCCTTGTACCAACTAGTGGAAAACCCCTCAACTGTCCCCTCTTTGAACCTATGGCTTGGGCCTCAAGAAACCCTCTTCCTACGAGTTTATACACTTTCCTCAATCCCTAGTTTCACAAGGGATTCAGGCAATTACTGTTAACAGTCTAAAAACAAGTCAAACTTTGTTTCAGCCACAGGGAAGGCTTAGTGCAATGGGAGGTACACTTGGGGTTCCCGAGATACACCATCAATCCTGGGGCGTTGCTAGTCTCCACCCAAGACTCCCTCCTTGGCACACCTGTTTCTTCTGCCTTATCCAGTCATTCCATGAAGTAAGTGTGTGTGTGTGTGTGTCCCACTGAGTTTAACTACAGTACCTTGCATGAGCAGAGGCAGGGGTTATTAATAGAAAATGGACAACTTACCATTGGTTATACCACTGAAGAAAATGATAACCTCCGTTGCTGCCCAGCCACCATTAACAAGGAAGGGTGGAGTCTCAGGAGCCTCTCCCCAGTGGGCATGATGGGGTGATAATGGACCCCTATCTTGTGCAGGTGGTAAAGTGTTCATGAGTGCACGTGTAGTGTGCAGAAGACCATGTCTCATAGCCCCCTTCCCTCCTACTGGCTCCTCCATTCTTTGGCTCCCTATTTTACAATGTTACTGAACTGTAGAAGGGGCAGTAAATATGTCTCACTTAGGGTCAAGCCCTCAACTGGGATTCTATGCATCAACTGTCGCCAGCTCCTCTGACCAGACCTGAATATGCATAGAAACGTTAATCTATGCATACGAATACAAGTATCTTTAAAAGCCTAGTCATTTTTTTAATTTCCTGCTTCCCAGTGAGTGCTGACAAATATTTAATTTCCACCCAGGTGTATTACCCTAGCTTTAGCGTATTGTAAACACATAATTATAAATCAGCAGGCAGAGAAAATTAAACATCCCATCTGTGTGTCAGGGTTGGAAGAAAATGAATAGTTCGGTAAACCTACATCCTATTACATCTAAATAAGTCATAATGGAGGTAGCATGCTCCATTGCTGGCCTACCCACGGTGCACAGTCTCACCAAAGCCATGCACTATAAGCTTACTCTCAGGAGTAATGACTGACCGCGTCACTTACTATCAGCATCCAAATCCTTAAAGAATTTTAATCAAGCAAAGATTCCCTTCACAAAAGTCAAACAATTTATATCTCAAGATATTCATTTCCTTTCTTATGTTTGAAGAGCAAAATCTGCAAGAACAGTATACTATTTTTTTCCTTTAAATTAACACTAAAATTGTTTTTTTTTAATGGAATTAGTCTTCGTTTTTAAAAGCTACGGCTCTATTGGACAACATAGTAATTAAAAATCTTAAGTCTTCAAGTTAGGCTCCCACTTAAATCCTGTGTCCTTAACTCTGTGGTCCTTATTAGCCATTTGACCCTCTGTAAGTTACTTAGGAACACTAATTAAATGCTGGTTTATCTCCAGATTTCTTTTGAGACAGAATCTCACTTCCAGGCTGGCTATTGGGTAGAAGAGCTTTCTATTTCCTCCACCTCCTGAGTCCTGAGATTACAGGCACGGGACATCGAGCCTAGTCTGTACATTGCTGAGGATCACACACAAGGTTTATATATGATAGACAAGCACTCAACAACTGAGGTACATCTCCAGACATCTATGGTTTTTCTCTTGCCTATGCATATGTCACTAGGTCTCACTGTGATATCCTGGCTGCCCTGGAACTTGCTATGTAGACCAGGCTAGCCTCAAACTCACAGAGATCTACCCACCACTGCCTTGCAAGTGCTAGTGTTAAAGCTGTGTGCATGTGTGTATGCATGAATATATGTGTATGTATGCATCACGTCCAGCCCCCTTTGCTTTCCTACAGCCTCTGATGAAGAAACCTTCAGATCAACAGGTAGTAAATGTTGGTCGTTCTCCTACTGCAAGAGTTTTGGAGACTCCTAATCTCGCTCCTCTCTGCTACACCCGGCAGGGGCACGAGAGCACATTCCAAGAGCAGTTCTGTAGTTTTGAGGAAACTGAGGTCTCGAGTCCCTTTTCTTGTTTTCTTGGTGTCTTCTCACAGGCTCTCCTACAATCCCTTTCTCAGGCCATGTTCCAATGTCCCAGCATGGTGGCACTTGCCTATCATCTCAGCACTCAGGAGGCTGAGGCAGAGAGATGAGGAGTTTAAAGTCATCCTTGGATGCATAGCAAGTTTGAGCTCAGCCCGGGCTACATGGGCATCCTTTGTTTTCTAAGACAATTCAGTTGAAGCATGCAAACGCTTTGTATCAAAAGCTTTAGTCAAATGCATTTTATATCAAGTGATTTGTGTTTTGTTTTGTTTCACTACAG
Seq C2 exon
ACTTCTCCCTAGTTTTATTGATAAAAGGAGGAGCCCTCTCTGGAACAGACTCCTACCAGTCTTTGGTTAACAAGACCTTTGGCTTTCCCGGGTACCTGCTGCTCTCTACCCTACAGTTTATGTACCCTTTCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061171:ENSMUST00000152324:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149013=Aa_trans=PU(7.0=96.0)
A:
NA
C2:
PF0149013=Aa_trans=PU(12.9=97.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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