RnoINT0094022 @ rn6
Intron Retention
Gene
ENSRNOG00000003522 | Mr1
Description
major histocompatibility complex, class I-related [Source:RGD Symbol;Acc:1593291]
Coordinates
chr13:72779706-72781058:-
Coord C1 exon
chr13:72780798-72781058
Coord A exon
chr13:72779982-72780797
Coord C2 exon
chr13:72779706-72779981
Length
816 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGA
5' ss Score
5.29
3' ss Seq
ATAGCCTGTGTATGTTTCAGGGC
3' ss Score
8.79
Exon sequences
Seq C1 exon
GGACCCACTCTCTGAGATACTTTCGTCTGGCTATTTCGGATCCTGGCCCTGGAGTCCCTGAATTTATCTCAGTTGGGTATGTGGACTCACACCCTATCACTACATACGACAGCGTCACCCGACAGAAGGAGCCAAGAGCCCCATGGATGGCGGAGAACCTGGCGCCTGACCACTGGGAGAGGTACACTCAGCTGCTAAGAGGCTGGCAGCGGACCTTCCAGACAGAGCTGAGGCACCTGCAGAGGCACTACAACCACTCAG
Seq A exon
GTGTGACTGCAGCAGCGGGGGATGAGCACACCCCCTCACTGGCTACTCCCCAGAAGAGCGCCCCTGGGCTGTGTATGGCAATGCCACTGGTTGCTTATATCCTCTCTAGCCTTTGGCAAAACTTTGAAAACGAGGTTGTTCGTTGTGTATTCTCTGTTCACCATCTCCCCTGTGGCTCGTTCACACTGACCTTCTGTGGAAACCCCTTATCCCTTGCCCCCATATTCCTATCCCATTGGTCCCTTTATCCCTTGTCCTATATTCCTATCACATTGGTATTCAACAATCTTTTCTTTTCTCATTCTAAATTTGCTTACCTTGGGACTCAACTTCTGATGGCTTCATGATTTGTTTATTTCTTTTTTTTTTTCCGGAGCTGGGGACAGAACCCAGGGCCTTGAGAAACGACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCGATTTGTTTATTTCTACATGGAAACTTACGGTATTAATTGTCCCAGATACATTTCTAGCCCCTGCATATCTCTTGCTCCTATACCGCACTCAGAATAGCTATGAAATTTATCAATGAATCATCCCAAAGATAGGATAATTCCTCAAGGCAGGCATCACTGTGATCCTTTGGCATGCCGTAGGTGCCTCACCAATGTCTGTGAGTAGGTGGCTCTGCAAAACAGGAACCTTCGGGAACCCAAATATGCAGGCCTGTGTGGTGGTGTCTTCTGAGGCAAAGAGTTCTTCCAATCATGCTCCAGTCGTGCCACTTGAGAAGCCTCTCTCTGTCTCTGTTTAAAGCCATCTGTCCATAGCCTGTGTATGTTTCAG
Seq C2 exon
GGCTTCACACCTACCAGAGAATGATCGGTTGTGAGTTGCTGGAAGACGGCAGCACCACAGGGTTTCTCCAGTATGCATATGATGGACAAGATTTCATTGTCTTCGATAAAGACACCCTCTCCTGGCTGGCTATGGATAATGTGGCTCACATCACCAAGCGAGCATGGGAGGCCAACCTGCATGAGTTGCAATACCAAAAGAACTGGCTAGAAGAAGAGTGCATTGCCTGGCTAAAGAGGTTCTTGGAGTATGGAAGTGATGCCCTAGAAAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003522:ENSRNOT00000004694:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.007
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(49.4=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(50.0=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCCTGGAGTCCCTGAATTT
R:
ATCCATAGCCAGCCAGGAGAG
Band lengths:
354-1170
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]