RnoINT0094025 @ rn6
Intron Retention
Gene
ENSRNOG00000003522 | Mr1
Description
major histocompatibility complex, class I-related [Source:RGD Symbol;Acc:1593291]
Coordinates
chr13:72771984-72773843:-
Coord C1 exon
chr13:72773739-72773843
Coord A exon
chr13:72772474-72773738
Coord C2 exon
chr13:72771984-72772473
Length
1265 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
AAACCTTCTTTTCCCTTCAGAAC
3' ss Score
10.16
Exon sequences
Seq C1 exon
AATCAGGAAACACCCTTCTAGTGGCAAACACGATCTCTGGGACCATAATTCTCATCATTGTCCTGGCTGGAGTTGGTGCCCTGATCTGGAGAAGAAGGTCACGAG
Seq A exon
GTGAGAGGCATACAGGACTCTTGGGAGATGCTGCTAGTGGTCTTGCTTGTGGCAGCTCCTGAGACTTCTGTTTACTGGACCTGCCACTTGAGCTCAATTTAGAAACAGGTTGACCCTCATGTTAGAATGGCATGAGGGCCTGGGACAACTTTCCCCCTCTTGTAGAGAAAACACCTGTTAATTTTCCTGGTTGTCTTAGTTTGGGTTTGCATGCTGTGAAGAGACACCATGACCAAGGCAACTCTTTTAAAGGACAGCATTTAGTTGGGTTACACTTCAAGAGGTCCAGTGCATTATCATCATGGCAGGAAGCACGGCAGGGGGCAGGCAGACATGGCACTGGAGGAGTGGATTGTTCTGCAGCTTGATCAGAAGGCAGCTATGAGAAGTCTGTCCTCCAGGCAGCTAGGAGGAGGTTCTCTCTCAAAGCCCACCCCCAAAGTGGCACACTTCCTTCAACAAGGCCACACCTACTCCAACAAGGCCACACCCCTTAACAGTGCCAAGTTCTGGACCACGTACATCCAAACCACCACACCATTCTTCTATCCTAATTATATGAAAGTCTTCTTTCTTTGAAATTCATTTTTCAGTACGTGAACTGCTTAAAGGTGGATACCTCTGGAAAAATAGGACTTGAGATAAGGGAAGGAGGAAGGAGGTATGCTTTTGATAACGTAGATAATAAATCCATTTATTTAACATGTACGAGAATGTCTGTTGTGCTTTAAGCACCATAGTGGCTCCTGGGAAACAGCAATAAAAAGACAAGCAAAAGCCCATGTCATGGAGCTAATGGCATAGTCTTGAAATGTCATTTTCTATTTCTGGTTTACTAGTTACTCAAGCTGATCACGACGAATATTACTGAAACCTGGATCAGGGCTCAGAAACCAGGTGGTCAGGGGCTTGCCTAGCCCCTTGATGCTTACTTGAACCCAATTCAGGGGATACTGTCTGTGTATGGTATTAGGTTCTAGTCAGACCCGTCCATTTGCTAGTGGGTAAGTGATGTTTCCATAGTGAATAGAGTACAATATGAATCCTGAACACATCAATACATACATCTCAAGAAGAAAGTTCCTGCTTTTTCTCTTCTGGAGTTTGTAAATTTTGAGTTAAAAAGTGTCAAGTTCTAGGAGAATCTTGAGAAAGCAAACTAAAACTGTCCGTGGCTGCTTCTAAGGTTTTGCTGAGTATTGACTAATTTTTGAGCAGTAAGGAAACTGTACACATAACTAACTAAAACCTTCTTTTCCCTTCAG
Seq C2 exon
AACCAAAAGAAGTCATGTACCAACCCACCCAAGTCAATGAGGGCAGCTCTCCCTCTTAGGAGCCATGGTCTCTGCTCTCAGGCACCCACGTGTCTCAGCCAAACTCCTGACACGGGATTGTAGAATTGAGCATTTGTGACAAGAAGATAAGAGCTACAAATTTGTCTTCGTTCTTTGGCTCCAGAAGAACTGTCAATTTTTAGGCTCTTGATAGACTTAAAACATAGTTTGTCTCATGACCCAATACCTCCCAATATTATATTTCTCAATGGTGATAGATTAGAGTCTCAGAGCAGCAAGCAGCTTTCTCATCCAAGATGTTTTCTAAAATGTCACAGACTTGGCTCTTTTCTCTGCTCTCTTACCCTCTTCAACCTTTATCCCTTTTCTCCCCATTCCCTATCCCCCTTCCCTCCCGTGCTCATGGCTGGCCTTTACTTCTCCCCTCTTCTACTTTTCTCTCATTAAACCTTTCCACGTGGAAAAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003522:ENSRNOT00000004694:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=NA C2=0.789
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGTTGGTGCCCTGATCT
R:
CTGCTTGCTGCTCTGAGACTC
Band lengths:
342-1607
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]