MmuINT1031119 @ mm10
Intron Retention
Gene
ENSMUSG00000028082 | Sh3d19
Description
SH3 domain protein D19 [Source:MGI Symbol;Acc:MGI:1350923]
Coordinates
chr3:86083502-86085357:+
Coord C1 exon
chr3:86083502-86083655
Coord A exon
chr3:86083656-86084367
Coord C2 exon
chr3:86084368-86085357
Length
712 bp
Sequences
Splice sites
5' ss Seq
CAAGTAATG
5' ss Score
2.09
3' ss Seq
TGTTCCTTTGCTCCTGTCAGCAC
3' ss Score
6
Exon sequences
Seq C1 exon
CTCCCGCCATCCTATGAACAAGTGATAAAAGAAATCAACCAAGTCCAGGTCAATGCCACAAATAACAATAACGCTGCTGCCACTCCAAGGAGCACTATCACCTCTGCGACGCAGACGGACTTTCCGGAGGACATAGACAGCGATCCTCCCCCAA
Seq A exon
GTAATGCAAGTACTCTGTCTCCCCTAATTCTGACCTAGTTCTGGGGCCGCCATCAGCCCGGCCTCCTGCCTTTAAAATAATTTGCAAGTCGTGCATCATTTATTGAATCTTGCTTTCTAGGCTTTGTGGTCCCTGTGTGCTTTAATTTGGGTATGCAGTGATTGCTATAATAGATCGTTCTTGAGAGCTATGACCCTGTCTCTCATCCGTCTCACAAAACACCCTCTGTTTAACCCACAGTGGGCATTAGCGTGGGTCCCTTTGTTTCCATTGAGAAGGATTTTCTCCATAATGATAGATATCGAAAAGAAACATTTCTCAATAAGTAAAGGTATTTAGTAAGTTCTTCGTGGTGAGATGCTATGGGTGACTGTTCTGTGGGCTTCTTTGGAGTATTCTATACTCTGGCAATAGAGATGAGAGTGACTTGCCTTGGAAAGTGAGCATTAAAGCTGTTGAGTTTTGACAGCCAGGTTTGTGTGATGTCTCATGAAAGCCAGGACTTCAATGGTATTTTAAAACATACAATGACTATGTTACAAAAACAAATGCAAGTTGTACAGTCCTGTAAGCTGACTTCGAATAGTTCCTAATGGAAACCTAATCTCTTGGTAGCCCATCTGTATACTTTTAAATCTGTATAGCTCCTGTTAAGTTTTTGCTTTTCAAATGGTAACACCACACCTTTGCCCTGTTCCTTTGCTCCTGTCAG
Seq C2 exon
CACTACAGGCGCCTCTCAAGCCTCTCCAGCCGTCACCCGCAGCCTCAGCTGGTAACCTCCCCCCAGGTGTGGCACCTTTAATCGTCTTCGATATCTGTGAAGAGCAAACTTGTCCTGAAAACCCCAGTGCTACAAGATGTCCAGTGCCAAGGCCAAGATCAAAAAGCAACCTCAGACCAGTAGCTAGGGATGCTAACAGTAAAGAGAAAAACAGCCAGAAAAGCCCAGTGACCCCCAGAGAAGACTGGCCACCCCACTGTCTACTGGACAGCACCTGCAATTTAGATAGCCAGGCAATGATGAACATTATGAACACAGAACAAAGCCAAAATACTATTGTTTCCAGGATCAAAGCATTTGAGGGTCAGACGAACACAGAAATCCCAGGACTGCCCAAGAAACCCGAGATTATTCCCCGCACGATTCCCCCGAAGCCTGCTGTTTCCTCAGGGAAACCCTTAGTGGCACCCAAGCCAGCTGCTAACAGAGCTTCTGGGGAATGGGACACATGGGCCGAAAACAGGCTCAAGGTGACTTCCAGAGAAGGGCTCACGCCATACTCATCGCCACAAGAAGCCGGAATCACCCCAGTAACCAAACCTGAATTGCCAAAGAAACCAACTCCTGGCCTTACACGAAGCGTGAACCATGAGACTTCTGGAGGAAGACCCATGGCGGAGAGCCCCGATACGGGGAAGAAAATCCCAACTCCTGCTCCCCGGCCTTTGCTGCCGAAAAAATCAGCCTCCACAGATGCCCCACCGTACCCTTCGATTCCACCGAAACTGGTTTCTGCCCCGCCCCGACTCTCAGTAGCATCACAAGCCAAAGCGTTCCGGTCACTTGGAGAAGGGCTGCCATCCAATCCCCCAGTTCCAGCACCACAGAGCAAAGCCCTGGGGGACATCGACCTCATCAGCTTTGACGATGACGTATTGCCCACCTCGGGGAGCCCAGCTGAAGAACCCACAGGTTCTGAGACGGTTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028082:ENSMUST00000182666:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCAAGTCCAGGTCAATGCC
R:
ACTGGGCTTTTCTGGCTGTTT
Band lengths:
347-1059
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