MmuINT0075545 @ mm9
Intron Retention
Gene
ENSMUSG00000067203 | H2-K2
Description
histocompatibility 2, K region locus 2 [Source:MGI Symbol;Acc:MGI:95906]
Coordinates
chr17:34111604-34112558:-
Coord C1 exon
chr17:34112442-34112558
Coord A exon
chr17:34112025-34112441
Coord C2 exon
chr17:34111604-34112024
Length
417 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCATGACTCTCATTCTCTAGCGT
3' ss Score
7.06
Exon sequences
Seq C1 exon
AGCCTCCTCTATCCACCGACTCCAACATGGTGACCATTGCTGTTCTGGTTGTCCTTGGAACTGTGATAGTCATTGTTGCTGTGGTGGCTTTTGTGATGAAGAGGAGGAGAAACACAG
Seq A exon
GTAGGAAAGGGCAGGGTGTGCATTTTCTCTCAGTCTCCTTTAGAAGTGTGCTCTGGCCAGGCGTGGTGGCACACACCTTTAATCCCAGCACTTGGGAGGCAGAGACAGGAGGATTTCTGAGTTCAAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGTCAGGGCTTCAGAGAAACCGTATCTTGAAAAACAAAAAAGCAAACAAACAAACAAACAAAAGAATTGTGCTCTGCTCATCAATGGGGAACACAGGCACACCCCACATTGCTACTGTCTCTAACTGGGTCCTTTGTCAGTTCTGGGAACTCCAGTGTCAAGATCTTCCTTGAACTCTCACAGCTTTTCTGAGTGAGTGAGCTGTGGGTGGTTGGAATGTTGACTTCAGAGTGATGGTTCATGACTCTCATTCTCTAG
Seq C2 exon
CGTGAAGCCAGCTGCCTGGAGTGGACTAAGTGACAGACAATGTCTTCACACATCTCCTGTGACATCCAGAGCCCTCAGTTTTCTTTAGTCAAGTATCTGATGTTCCCTGTGAGCCTATGGGCTCAAAGTGAAGAACTGTGCAGCCCAGCCTGCCCTGCACACAGAACCCTGTCCCTGCACTGCCCTGGGTTCCCTTCCACAGCCAACCTTGCTGCTCCAGCCAAACACTGGGCGACATCTGCATCCTGCCAGCTCCATGCTGCCCTGAGCTGCAGCTCCTCACTTCCACACTGAGAGTAAGAATCTGAATGGGACCTTGATTCTTAACATCCTGACCGAGGGTTGATTTCTTGTTAATTTCATGGATTGAGAATACTTAGAGTTTTGGTTTGTTTTGATTTTTTTTCAAGAAATAAATGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067203-H2-K2:NR_004446:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=0.047 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
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATTGTTGCTGTGGTGGCTT
R:
TCAGTGTGGAAGTGAGGAGCT
Band lengths:
342-759
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: