MmuINT0075642 @ mm9
Intron Retention
Gene
ENSMUSG00000073409 | H2-Q6
Description
histocompatibility 2, Q region locus 6 [Source:MGI Symbol;Acc:MGI:95935]
Coordinates
chr17:35562516-35565084:+
Coord C1 exon
chr17:35562516-35562791
Coord A exon
chr17:35562792-35564808
Coord C2 exon
chr17:35564809-35565084
Length
2017 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
TTCTTGAATCTTCCAAACAGATC
3' ss Score
8.71
Exon sequences
Seq C1 exon
GCTCTCACACACTCCAGTGGATGTATGGCTGTGACGTGGGGTCCGACGAGCGCCTCCTCCGCGGGTACCTGCAGTTCGCCTATGAAGGCCGCGATTACATCGCCCTGAACGAAGACCTGAAAACCTGGACGGCGGCGGACATGGCTGCACAGATCACCCTACACAAGTGGGAGCAGGCTGGTATTGCAGAGAGAGACCGGGCCTACCTGGAGGGCGCTTGCGTGCAGTCGCTCCGCAGATACCTGCAGCTCCGGAAGGAGACGCTGCTGTGCACAG
Seq A exon
GTGCAGGGGCCGCGGGCAGCTCCTCCCTCTGCCCTCGGGCTGGGGCTCAGTCCTGGGGAAGAAGAAACCCTCAGCTGGGTGATGCCCCTGTCTCACAGGGGAGAGAGTGACCCTGGGTCTCCTGATCCCTCATCACAGTGACTGCACTGACTCTCCCAGGGCTCAGCCTTCTCCCTGGACAGTGCCCAGGCTGTCTCAGGAGGGAAGGAGAGAATTTCCCTGAGGTAACAACAGCTGCTCCCTTCAGTTGCCCTGTAGCCTCTGTCAGCCATGGCCTCTCCCAGGCCGGGTTCTCAGCCCACACCCACTGTCTGTAGACACTGACTCCTGTCCTGCTGAGTGTGTCAGCCCTTACACCTCATGACCTGAAGTCTCCTTTACCCGATGGGAGACATGGACTATCCTACACTAGGCTGGTTCCCCCAGTTTCTAGAACTTTCCAAAGAATACAGTCTACCAGATCCTTCCCTGTCTGTGGGGTTTGCATCCTTAGACACCCAATTCTATCTATTCCTGCAATGGTGAATAGTTACATGAGCCATTATGGGTTACCCTAAACAAATACTTTTCTTGTGTTTTTCCCCTCTCGTTTTCTTTTTATATACTTTTTTTTAAAGGGTATTATGTTGCTTATAATCGGTTTTTCTTTGGCACTGGAATGATATTGCTCTCTCTCCCCACCACACCCCCACCCCCGCCTATATCATTTGTATCAGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAAATCAGCCTGGCTCTGCCTCTGCCTCTGCCTCTGTCTCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCTTGGGCCACCACCACTGGGCAGAAGAAAGGTTCCTGCGAGCTTAAAATGTTTTCTGGCAGAATTAACCATCCAGATCACACCTGATATCCCTGTGCCCCACCAAGTTACAGTGCTCCCCCTGGTGAATCAGAACTTGGACTCTGAGAGACAGGGTCTTCTGCAATCCAGGCCTGAGTGAGAGGGAAGACCACACACCCTGTGAGCCCACTGTGTTCCAGTGAGTGCTGCACTGGGGTCCACAGCACACTCCAGGGATCCTGTGTGACACATCTGTACCTTGTCCCCCAGAGTCAGGGGCTGGGAGTCATTTTCTCTGGCTGAGTGTCAGAGGTTCACCACATTTCTGCTACACACTCCCTGATGGCTGTTTACTTGGACTGACAGTTAATGTTGGTCAGCAAGATGACCACAGTGGTTTAGTCTCAATGGTGTCACTCTTCCAGTAGCATATGGTCCTGATTTCTAATTTAGATACGAACTCAAACACATATGAAATTTCTTATTTTCCATTCCATCTTCCATTATATAGCTACCTATCTCGTGCTATTGAACATCACATAAGGATGACCATGTTTACCCACTGGCTCATGTGGATTCCCTCTTAGCTTCTGAGTCCCCTCAGGAAAATGTGCAGTCCTGTGCTGAGGGGACCAGCTCTGCCTGCAGGTCACTAGTGCCATGACAGTTAAAGTGTTCATACAGACACATAGTTCATTGTAATTACTGATTTAACGTTGTCTTGGCAGTTTTCAGTTTGCATTTATTTATTTATTTATTTATTTAATGCATGGAAGTACACTGTTGCTGTACTGATGGTTGTTTGCCTTTGTGTGGTTGTTGGGAATTGAATTTTTTTTTAGGACCTCTCTTTGCTCTGGTCGACCCTGCTCACTCCGGTCAACTCCTATGGGTCAACTCTGCTCACTCAGTCCCTGCTTGTTCTGGCCCAAAGATTTATTTATTATTTATTATACATAAATACACTGTAGCTGACTTCAGATGCACCAGAAGAGGGCGTCAGATCTCATTACAGATGGTTGTGAGTCACCATGTGGTTGCTGGGGTTTGAACTCAGGACCTTCAAAAGAGCAGTCAGTGCTCTTACCCTCTGAGCCATCTCCCCAGTCCTCAGTTTGTCTTCTTAATTATGCGATTTCTTGAATCTTCCAAACAG
Seq C2 exon
ATCCCCCAAAGGCACATGTGACCCATCACCCCAGGTCTTATGGTGCTGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACTTGGCAGTTGAATGGGGAGGAGCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTCTTGGGAAGGAGCAGAATTACACATGCCATGTGAACCATGAGGGGCTGCCTGAGCCTCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073409-H2-Q6:NM_207648:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.113
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.2=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=86.5)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: