MmuINT0075602 @ mm9
Intron Retention
Gene
ENSMUSG00000016206 | H2-M3
Description
histocompatibility 2, M region locus 3 [Source:MGI Symbol;Acc:MGI:95915]
Coordinates
chr17:37410811-37411430:+
Coord C1 exon
chr17:37410811-37410857
Coord A exon
chr17:37410858-37411113
Coord C2 exon
chr17:37411114-37411430
Length
256 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CTCAATGTCTCTTTCTGCAGTTG
3' ss Score
8.65
Exon sequences
Seq C1 exon
GCAGGAACAGTGATTAAGTTCTGATGCTTCTTTCACCATTTAGAAAG
Seq A exon
GTAAGAAGTTGCCGGGCCTAACCTGTAGCATGTGGTGGAACAGAGGATAGACCCCTGGGTTATGGGGACTCTAACAATGGGACATTTGAGCTGAGTACTTTAGAGTATCACACCTCCCAGGAAAGTTTGAATTTCTTCTATTTTCTTCCCCAGTATGAAAGAAAGCCTTGCCTTGTGTGGGACTGAGTTTACAGCATGTGTTCTGATCTCTCCTTCTGTACTATAATTCCAAAACCCTCAATGTCTCTTTCTGCAG
Seq C2 exon
TTGGCATCTCATGGTGTGTCTCCTGTCAGCACAGTGTGACAAAGTGAGCAGCCCAGGGCATCCCTGAGGACTGAGTCTCCTCTCCATACCTGTGTCTCCTCCTTTTCTCACCTGTACCACAGGGGGATCCAGGACTTCTTCATCCCTTGTGGAACTTTAGGTTTCTATGGGCAGCTTCTTCCCTATTGAAAAATAAGGATGTAGATATAGCTTTATTATTATTATTTTTTTTTTTACCTTCTCGATAAAAGCTGTACTTCATGCTGTTAAAAGTGTAAGATTTGTACATTGGAAAGGAAATAAAACATGAAAACTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016206-H2-M3:NM_013819:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
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:
AGTTCTGATGCTTCTTTCACCA
R:
ACAGCATGAAGTACAGCTTTTATCG
Band lengths:
298-554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: