MmuINT0075667 @ mm9
Intron Retention
Gene
ENSMUSG00000067212 | H2-T23
Description
histocompatibility 2, T region locus 23 [Source:MGI Symbol;Acc:MGI:95957]
Coordinates
chr17:36167523-36168042:-
Coord C1 exon
chr17:36167767-36168042
Coord A exon
chr17:36167640-36167766
Coord C2 exon
chr17:36167523-36167639
Length
127 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
CCTGTACCTGTCCTTCCCAGAGC
3' ss Score
8.66
Exon sequences
Seq C1 exon
ACCCTCCAAAGGCACATGTGACCCATCACCCTAGATCTGAAGATGAAGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGAGCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCAGCTGTCGTGGTGCCTCTTGGGAAGGAGCAGTATTACACATGCCATGTGTACCATGAGGGGCTGCCTGAGCCCCTCACCCTGAGATGGG
Seq A exon
GTAAGGAGGGTGTGGGTGCTGAACTGGGGTCAGGGAAAGCTGGAGCCTTCTGCAGACCCTGAGTTGGTCATGGCTCAGAGCTGGGATCATAACCCTCACCTTCATTTCCTGTACCTGTCCTTCCCAG
Seq C2 exon
AGCCTCCTCCATCCACTGTCTCCAACATGGTAATCATAGCTGTTCTGGTTGTCCTTGGAGCTGTGATCATCCTTGGAGCTGTGGTGGCTTTTGTGATGAAGAGGAGGAGACACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067212-H2-T23:NM_010398:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.161 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=89.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACCTGGCAGTTGAATGGG
R:
CACAGCTCCAAGGACAACCAG
Band lengths:
246-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: