MmuINT1020329 @ mm10
Intron Retention
Gene
ENSMUSG00000079507 | H2-Q1
Description
histocompatibility 2, Q region locus 1 [Source:MGI Symbol;Acc:MGI:95928]
Coordinates
chr17:35324001-35325099:+
Coord C1 exon
chr17:35324001-35324048
Coord A exon
chr17:35324049-35324181
Coord C2 exon
chr17:35324182-35325099
Length
133 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACA
5' ss Score
5.19
3' ss Seq
TCATGACTCTCTTTCTCTAGCAT
3' ss Score
7.75
Exon sequences
Seq C1 exon
GCAGGGACAGCGCCCAGAGCTCTGATATCTCTCTCCTAGATTGTAAAG
Seq A exon
GTGACACTCTGGTGCCTGATTGGGGAGGGGCAATGTGCATATGATTGGGTTTCAGGGACTCCCAGAATCCTGTGAGTGGTGGGTTGTTGGGATGTTGTCTTCACAGTGATGGTTCATGACTCTCTTTCTCTAG
Seq C2 exon
CATGAAGACAGCTGCCTGGAGTAGACTGAGTGATAGCCAGTGTGTTCAGGTCTCTCCTGTGACATCAAGAGTCTTTAGACATCAGCTTTCTTTAGAAAATGGTGTCTCATGTTCTCTGCCACACCAACCCCAGTAGCAGCCATGTGACAAGTTGCACAGACTGAGGTATACTTCAAAAGAAGGAGGCCTCCTGGAACCAGTTGTGGAACTCTTGGCCAGAGTATTATATTGAGTCTTAGTTCTCATGGCAATTGATTTATTTTGTTTTCTCTTATTCCTTTTCTTATTTACATGTTCCTCGTAACCTAGGCTAAGATCTCATGTGAAAGTAATGGGTTAGAAACCATCCCTAGAATTGGGGTCACTAACATGACCTTATCTGGGGAAACCAACGCTTTACTTTAGAAATTATTTACAAAATTATATAATAGTATTACACAGATAAAAACTTTTCCAACAATAAAATTTCATGTGGCTACATGTGTGTTATCGGAGGTGGGCTTTGGCATGTGGTAAAGAAAGTCTTAAATAAAAAGAATTAACATAGTTTAAATTTAAGCACTGAAAAAAATCAGGCATTAGATGTTAAATAATAATTGACCATAAAGATTTATTAACATGTCTTGAACATATGCCAGTAGCCTTGGATGACTGCCCCACAACTTATATTCTTTTAGAGTTGTTATACTTCAATCATTTCTACTCTTCATGATGTCACCTGTTCTGTTTGTGATTCACTGAACACATCTTTACAGAGTTGTAATGTTTGCCTGATTTTTGTGCTTTCCTGTGCCAAATGATAATGATGGTATTTGTGATTGCTTCACTGGACACATCTTCAAAGTGTTGTAATATTTGCTCTTTTAATGTTTAAAAACCCCTGCTTGAGAGCTGCAAAATACACTCGGATTCATACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079507:ENSMUST00000073208:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=PD(51.7=88.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
GCGCCCAGAGCTCTGATATCT
R:
GCCAAGAGTTCCACAACTGGT
Band lengths:
255-388
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