MmuINT1019600 @ mm10
Intron Retention
Gene
ENSMUSG00000108022 | Gm7298
Description
predicted gene 7298 [Source:MGI Symbol;Acc:MGI:3648717]
Coordinates
chr6:121784249-121784755:+
Coord C1 exon
chr6:121784249-121784467
Coord A exon
chr6:121784468-121784627
Coord C2 exon
chr6:121784628-121784755
Length
160 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTCTCTTCACTACTTGTCAGACT
3' ss Score
3.29
Exon sequences
Seq C1 exon
GACACTGTGGTGGCCCTTGATGCTCTGTCCAAATACAAAGCAGTGACTTTTTCCAGAAGCCAGAAAACTACTTTAGTGACCATCCAATCTTCAGGGTCATTTTCCCAAAAGTTCCAAGTGGAGAACAGTAATCGCCTGTTACTACAGCAGGTCGCATTACCAGACATTCCTGGGGACTATACCATGAGTGTGTCAGGGGAAGGATGTGTGTATGCTCAG
Seq A exon
GTAAGATGCTGGGAAGTTGTGGGTGTGCAGCTGTGGGCCTCCTTCCTCAAAATGGGAAGTCTGACTTTGCCTACCTGCACACATTATGCTCAAATTGGGAAAAATTGATCCAAGGACACAGTGAAATGGAGGTGAAATATTTCTCTTCACTACTTGTCAG
Seq C2 exon
ACTACGCTGAGATACAACATACACTTGGAGAAGCAGCCGTCTGCATTTGCTCTACGGGTACAGACAGTACCTCTAACTTGTAATGACCCCAAAGGCCACAACAGCTTCCAGATCTCACTAGAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000108022:ENSMUST00000204124:30
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:
PF076789=A2M_comp=PD(5.1=17.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTTGATGCTCTGTCCAAA
R:
CGGCTGCTTCTCCAAGTGTAT
Band lengths:
246-406
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