RnoINT0094024 @ rn6
Intron Retention
Gene
ENSRNOG00000003522 | Mr1
Description
major histocompatibility complex, class I-related [Source:RGD Symbol;Acc:1593291]
Coordinates
chr13:72773739-72775697:-
Coord C1 exon
chr13:72775422-72775697
Coord A exon
chr13:72773844-72775421
Coord C2 exon
chr13:72773739-72773843
Length
1578 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TGTTTCTCATTTCCTTACAGAAT
3' ss Score
10.78
Exon sequences
Seq C1 exon
AACATCCAGTAGTAAGAACAACTCGAAAGGAAACGTTTCCAGGGATTACCACTCTCTTCTGCAGAGCTCATGGCTTCTACCCACCAGAAATTTCCATGATATGGAAGAAAAATGGGGAAGAAATTGTCCAGGAGGTGGATTATGGAGGGGTGCTTCCCAGTGGGGATGGAACCTATCAAATGTGGGTGTCGGTTGATCTGGATCCTCAGACCAAAGACATTTATTCTTGTCATGTGGAGCACTGTGGTCTCCAAATGGTTCTGGAGGCCCCTCAGG
Seq A exon
GTAAGTATGGGGGTGGTGGCTGTCTGGGAAGATAGTGAGGAAAAAGGTAGAAAGTTTTGAAGACTGTAAGGAAGGGAGACTAGGTCACCACATGAGTCACCACAGGCTTCACCAGGTGGTGGTACAATGGCAACTGCTTTGTTTGGTTTTGGAGACAGGGTTTCTGTGTAGCCCTAGCTGTCCTGAAACCTGCTTTGTACACTAAACTGGCCTTGAACTCACAGAGATCCACCTGTCTCTACTTCCCGAATGCTTGGATTAAAGGCATGGATAACTATACCTGACTTCAATCTCTATTTGTAATTTTAAATTTTTTTATTTTATTTTATGTGTATGATTTTTTTTTGCCTGCATGTATGGCGTGCACCACATGTGTGGAGTGTCCACAGTGGCCAGAAGAGGATCATTGAATCCCCTGGACTTAGAGTGATAGATAGTTGTGAGCTACCATGAGTGCTGGGAATCCAATCTAGAACCCCTGGAAGAGCAGCCTGTGCTCTTAACCACTGAGCCATCTCTCCAGCTCCAGGATTTATTTTATTATTTTTATTCATGTGTGTATTCGTGTCTCTGTGTGCCAAACAAGTTCAGAAGAAGGCATCGGATCCCTTGGAGCTGGAGTTACGGATGCTTGTGAACTATCCCAGTTCCCCCATAAGAGCAGTCAGTGCTCTTAAGGGGCTGAGCCATTTCTCCAGTTCCAACAAGGTTTGTTTCTTTTAAGATTTATTTATATGAGTACACTGTAGCTGTCTGCAGACATACCAGAAGAGGGCATCAGATGCCATTACAGATGGTTGTAAGCCATCTGGGATTTGAACTCAGAACCTCTGGAAGAGCAGTCAGTGCTCTTAACGTCTAAGCCATCTCTCAAGCCCCCACAATGGTTCTTTTCAATCAGCGTTCCTCAAAGTGTTCAGTTCCCACACTCTTCTATGTTCTTATGAATTACTGAGGACCTTCAATAGCTGTCATTTGTGCGTGTCATCCCTGTTGCAGTTTACTATATTACATATTACATTTTCTAAAAGTAGCCAGGTGGTGGTGGCACATGCCTTTAACCCTAGCACTCAGAAGGCAGAGGCAGACAAGTCTCTGAGTTCAAGGCCAGCCTGGTTTACAAAGTGATCTCTGAGACAGCCAGGACTACACGGAGAAACCCTGTCTTGAAAAAAAAATAGATAGATAGACAGAGATAGAGAGAGAGAGAGAGAGAGAAAGAGAGAGAGAGAGAGATAGTCAGGCAGGTAGACAGACATACAGAACTGCGTGGTAGAAGCACATACCTTTAACCCAGCACTGGGGCCTTAGGGTAGAGGTGGGAGGCAAAGGCAGATTGATCTCTGAGTTTGAGGCCAGCCTGATCTGAAAAGTGAATTTCAGGGCATCTGGGGGTACACCGAGAAACCCTGTCTCAGGAAAGACAAACATAATCAAATAGAAGAAGGCATAAGCACATATCTATGTGCCATCAGATGGTGACTGAGAAGTGACGATAGCCGGGTTTCCTGTGAACACCACGGCACACTTAATGCAGACAGCAGGAGCAATGTGGAGGTGTTTCTCATTTCCTTACAG
Seq C2 exon
AATCAGGAAACACCCTTCTAGTGGCAAACACGATCTCTGGGACCATAATTCTCATCATTGTCCTGGCTGGAGTTGGTGCCCTGATCTGGAGAAGAAGGTCACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003522:ENSRNOT00000004694:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.119
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTTTCCAGGGATTACCACTC
R:
CCTTCTTCTCCAGATCAGGGC
Band lengths:
342-1920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]