MmuINT0075643 @ mm9
Intron Retention
Gene
ENSMUSG00000073409 | H2-Q6
Description
histocompatibility 2, Q region locus 6 [Source:MGI Symbol;Acc:MGI:95935]
Coordinates
chr17:35564809-35565306:+
Coord C1 exon
chr17:35564809-35565084
Coord A exon
chr17:35565085-35565211
Coord C2 exon
chr17:35565212-35565306
Length
127 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
CCTGTACCTGTACTTCCCAGAGC
3' ss Score
6.54
Exon sequences
Seq C1 exon
ATCCCCCAAAGGCACATGTGACCCATCACCCCAGGTCTTATGGTGCTGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACTTGGCAGTTGAATGGGGAGGAGCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTCTTGGGAAGGAGCAGAATTACACATGCCATGTGAACCATGAGGGGCTGCCTGAGCCTCTCACCCTGAGATGGG
Seq A exon
GTAAGGAGGGTGTGGGTGCAGAGCTGGGGTCAGGGAAAGCTGGAGCCTTTTGCAGACCCTGACCTGCTCAGGGCTGAGAGCTGGGGTCATGACCCTCACCTTCATTTCCTGTACCTGTACTTCCCAG
Seq C2 exon
AGCCTCCTCCATCCACTGTCTCCAACATGGCGAACGTAGCTATTCTGGTTGTCCTTGTAGCTTGGCCATCATTGGAGCTGTGGTGGATTTTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073409-H2-Q6:NM_207648:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.113 A=NA C2=0.060
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=86.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACATCACCCTGACTTGGCAG
R:
GCCAAGCTACAAGGACAACCA
Band lengths:
256-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: