MmuINT0075630 @ mm9
Intron Retention
Gene
ENSMUSG00000067235 | H2-Q10
Description
histocompatibility 2, Q region locus 10 [Source:MGI Symbol;Acc:MGI:95929]
Coordinates
chr17:35607771-35610303:+
Coord C1 exon
chr17:35607771-35608046
Coord A exon
chr17:35608047-35610027
Coord C2 exon
chr17:35610028-35610303
Length
1981 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
TTCTTGAATCTTCCACACAGATC
3' ss Score
8.08
Exon sequences
Seq C1 exon
GCTCTCACACGATCCAGTGGATGTATGGCTGTAAAGTGGGGTCCGACGGGCGCTTCCTCCGCGGGTACCTGCAATACGCATACGACGGCCGCGATTACATTGCCCTGAACGAAGACCTGAAAACGTGGACGGCAGCGGACGTGGCGGCGATTATCACCCGACGCAAGTGGGAGCAGGCTGGTGCTGCAGAGTATTACAGGGCCTACCTGGAGGCCGAGTGCGTGGAGTGGCTCCTCAGATACCTGGAGCTCGGGAAGGAGACGCTGCTGCGCACAG
Seq A exon
GTGCAGGGGCCGCGGGCAGCTCCTCCCTCTGCCCTCGGGCTGGGGCTCAGTCCTGGGGAAGAAGAAACCCTCAGCTGGGGTGATGCCCCTGTCTCAGAGGGGAGAGAGTGACCCTGGGTCTCCTGATCCCTCATCACAGTGACTGCACTGACTCTCCCAGGGCTCAGCCTTCTCCCTGGACAGTGCCCAGGCTGTCTCAGGAGGGAAGGAGAGAATTTCCCTGAGGTAACAACAGCTGCTCCCTTCAGTTCCCCTGCAGCCTCTGTCAGCCATAGCTCTCCCAGGCTGAGTTCTCTGCCCACACCCACTGCTATCCTGCTGAGTGTGTCAGCCCTTACACCTCATGACCTGAAGTCTCCTTTACCCGATGGGAGACATGGACTATCCTACACTAGGCTGGTTTCCCCAGTTTCTAGAACTTTCCAAAGAATACATTCTACCAGATCCCTCCCTGTCTGTGGGGTTTGCATCCTTTGACACCCAATTCTATCTATTCCTGCAATGGTGAATGGTCACATGAGCCATTATGGGTTACCCTAAACAAATACTTTTCTTGTGTTTTTTCCCCTCTCGTTTTCTTTATATCTTTACTTTTTTTTAAGGGTATTATGTTGCTTATAATCGGTTTTTCTTCGGCACTGGAATGATATTGCTCTCTCTCCCCACCACACCCCCACCCCCGCCTATATCATTTGTATCAGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAAATCAGCCTGCCTCTGCCTCTGCCGCTGGGATTAAAGGCGTGGGCCACCACCACTGGGCAGAAGAAAGGTTCCTGTGAGTTTAAAATGTTTTCTGGCAGAATTAACCATCCAGATCACTCCTGATATCCCTGTGCCCCACCAAGTTACAGTGCTCCTCCTGGTGAATCAGGACTTGGACTCTGAGAGACAGGGTCTTCTGCAATCCAGGGCTGAGTGAGAGGGAAGACCACACACCCTGTGAGCCCACTGTGTTCCAGTGAGTGCTGCACTGGGGTCCACAGCACACTCCAGGGATCCTGTGTGACACACCTGTACCTTGTCCCCCAGAGTCAGGGGCTGGGAGTCATTTTCTCTGGCTGAGTGTCAGAGGTTCACCACATTTCTGCTACACACTCCCTGATGGCTGTTTACTTGGACTGACAGTTAATGTTGGTCAGCAAGATGACCACAGTGGTTTAGTCTCAATGGTGTCACTCTTCCAGTAGCATATGGTCCTGATTTCTAATTTAGATACGAACTCAAACACATATGAAATTTCTTATTTTCCATTCCATCTTCCATTATATAGCTACCTATCTCGTGCTATTGAACATCACATAAGGATGACCATGTTGACCCACTGTCTCATGTGGATTCCCTCTTAGCTTCTGAGTCCCCGAGGAAAATGTGCAGTTCTGTGCTGAAGGGACCAGCTCTGCCTGCAGGTCACTAGTGCCATGACAGTTGAAGTGTTCATACAGACACATAGTTCAGTGTAATTACTGATTTAATTTTGTCTTAGCAGTTTTCAGTTTGTCTTTTTATTTGTTTGTTTGTTTGTTTGTTTGTTTTATGTATGGAAGTACACTGTAGCTGTACTGATGGTTATGAGCCTTCGTGTGGTTGTTGGGAATTGAATTTTTTTTTAGGACCTCTGTTTGCTCTGATCGGCCCCGCTCACTCCGGTCAACTCCTAAGGGTCAACTCTGCTCACTCAGCTCAGTCCCTGCTTGTTCTGGCCCAAAGATTTATTTATTATTGTACATAAGTACACTGTAGCTGACTTCGTATGCACCAGAAGAGGGCGTCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGGCTTGAACTCAGGACCTTCAAAAGAGCATTCAGTGCTCTTTACCCTCTAAGCCATCTCCCCAGTCCTCAGTTTGTCTTCTTAATTGTGCGATTTCTTGAATCTTCCACACAG
Seq C2 exon
ATCCCCCAAAGACACATGTGACCCATCACCCAGGATCTGAAGGTGATGTCACCCTGAGGTGTTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGAGCTGACCCAGGACATGGAACTGGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTCTTGGGAAGGAGCAGAATTACACATGCCATGTGTACCATGAGGGGCTGCCTGAGCCCCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067235-H2-Q10:NM_010391:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.226
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.2=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=90.3)
Main Inclusion Isoform:
NA
Other Inclusion 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:
AAGACCTGAAAACGTGGACGG
R:
AGATGCCCACTTCTGGAAGGT
Band lengths:
356-2337
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: