MmuINT1014673 @ mm10
Intron Retention
Gene
ENSMUSG00000109372 | Gm19410
Description
predicted gene, 19410 [Source:MGI Symbol;Acc:MGI:5011595]
Coordinates
chr8:35780322-35781692:+
Coord C1 exon
chr8:35780322-35780490
Coord A exon
chr8:35780491-35781466
Coord C2 exon
chr8:35781467-35781692
Length
976 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTG
5' ss Score
7.67
3' ss Seq
ATGAGACTCTAATCCTTTAGTCC
3' ss Score
2.98
Exon sequences
Seq C1 exon
GTATCTGTATTGGGTAGACCGAAGTGAGAATGGGGTAAAGACTATTGAAACTGCAGGAATGGATGGCTCGGACAGGAAGATGCTAGCAGTCGTGACCGCAGAGGAGCCCCTAGGACTGACACTTGATCACGTGACTGGCAGACTCTACTGGATCAGTGGCTATAAAGAG
Seq A exon
GTACTGTAGATAAGCCCAGAGGCATGGGAGTTCTTTTGCCAGGAGAAATACTGCTCACGGGTGGAAGTTCTGCTGACACAGGAGATAGAGTTACACTGTAAGTAGTCTTTCATGTCTATGTATATGTTGGAAACAATACTTGACAAGACTGTTCAACACCTGATTTGGATCTATACCATGAGGCATGTAGGACTGAAGGAATAATGGCCAGGTATATACACTCTTCTCTTATGTCTACCATTAACTCCAGGAAGTAACTTGCGGAGCAAAACAAGAAGAGCCAGGTTTAACTGCACATACTTTGAGTAGAGCAGACTGTACCAACAGCTTGGGAGACTTGGTGTGCTGTTGTTGTTGTTACTTTAACAGACTCTATAGTCCAACAGCGCTAAATTTTTGCAAAAAAGAATAAAGGTCATGGTTTATATTGTACCCATGATGCAAGATGTTTTTAAGATTTCTAGAAACATCCATGACACTTTAGAGTTCTGTACTCAAGATTCCCAAGGCCTAATGATGCAGTTTACGATATCCCAATATGGGAAATGACAAACTAAAAAGGTCGTTATGACATAGTGACTAAAAGCAGAATTTCATAGCCGGATGAGTCACATTCTCAAGTCTCCCGTTTCCTAAGCTGTGTTTTCGGCTAATTAGGATACTCCTGTGAGAGCATTATCCTCGGAGATTAGAGCTCACTGCTCTCTCTGAGGATACAAGAAATGCCTATCTTCTAAGGCAATCGTAGAATAGAGTGAATAGCATTGAAACCCTGTAGAGCAGATGCTATGGTAACCAAAATCTGAACAAGGACCACTCAGTGTGCTGACTTTAACAGAGGCCTCTACCATCCTAGATGAATTTCTCCCTATGGACTTGACATCCCAGTGATGTTTAACCAGCATCCAGAAGTCTCTGGTGACATCAGTCACACTTGCTGAAGCTACCTCTATCTCATGAGACTCTAATCCTTTAG
Seq C2 exon
TCCATAGAGACAGTGAACGTGGACAGCAGTGGGAGGTACACCTTCCCTCGGGTATTTTTCGAAGACGAACACCCCGTTGGCTTGGCTGTATTTGAAAATGCTTTCTTCTGGGCAAATCAGACTCAACTGATTCGTACCTCACCCAGCAGCCCGAAGGAGAGAGAGGTGCTGCTCCACGCCTCCATCTCTGCTTTCTCAGTCCTCCACAAGACCCAGCAACCCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000109372:ENSMUST00000207505:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.053 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=77.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
AGACCGAAGTGAGAATGGGGT
R:
GAGAAAGCAGAGATGGAGGCG
Band lengths:
351-1327
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