HsaINT0104899 @ hg19
Intron Retention
Gene
ENSG00000153029 | MR1
Description
major histocompatibility complex, class I-related [Source:HGNC Symbol;Acc:4975]
Coordinates
chr1:181021371-181022813:+
Coord C1 exon
chr1:181021371-181021646
Coord A exon
chr1:181021647-181022708
Coord C2 exon
chr1:181022709-181022813
Length
1062 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
TCTCATTTGCTTGCTTTCAGAAT
3' ss Score
9.96
Exon sequences
Seq C1 exon
AGCCCCCACTGGTCAGAGTAAATCGCAAAGAAACTTTTCCAGGGGTTACAGCTCTCTTCTGCAAAGCTCATGGCTTTTACCCCCCAGAAATTTACATGACATGGATGAAAAACGGGGAAGAAATTGTCCAAGAAATTGATTATGGAGACATTCTTCCCAGTGGGGATGGAACCTATCAGGCGTGGGCATCAATTGAGCTTGATCCTCAGAGCAGCAACCTTTACTCCTGTCATGTGGAGCACTGCGGTGTCCACATGGTTCTTCAGGTCCCCCAGG
Seq A exon
GTAAGGACGGGGATCGTGGCTGTCTAGGGAGAGAGCCTGGAGAAAGGGGTGAGCAGGAAACCATGCTCGCTGCCAGGGAGGGGAGGATAGATCACTGCCTCACTCAGTGTGCCTTAGAATGGGTCTTTTAAATAAGTGGTTCTCACACTTTTTGGAACCAGGACGCCTTCATACTATTAAAAAATTATTGAGGACCCCAGAGAGCTTTTGCTGATGTGGGTTATATCTATTGCTATTTACTACATTACAAATTAAAAATTTAAAAATTAAACACGAATGGGTGCAGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGTGGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAGGCATGGTGGCGCATGCCTGTAATCCCAGCTCCTGGAGGCTGAGGCAGGAGAATCGCTTGAACCTGGGAGGTGGAGGTTGCAGTGAGCCGAGATCGCACCACTACACTCCAGCCTGTGCGAAGGGAGCAAGACTCCCTCTCAAAAAAACAAAAAAACAAAAAACAAAAAAACACAACCCAGGCGCAGTGGCTCACTCCTGTAATGCCAGTACTTTGGGAGGCTGACGCGAGTGAACTGCTTGAGCCCAGGAGTTCAAGACCAGCCTGGGCAACATACTGAGATCTCATCTCTACAAAAAACACAACAATTAGCTGGGCATGATGGCATGCGCCTGTAGTCCCAGCTACTGAGGAGGCTAAGGTGGGAGGATCGCTTGAGCCCAGGAGGTTGAGGCTGCAGTGAGCTATAATGGCACCACTGCACTTCCACCTGGACGACAGAGTGAGACGCTGTCTCAAAAAAAAAAAAAAAATTAAACACAAGAAAACACAAGCAGATATTCCATTAGTGGTCAGATTGATGAGTGAGAAGCAACAGTAAGGAAAATGGTGTTGGGTTTCCTGATGATCACAGGGACAAAAGTCCCAGAAAGTTAACACAGAAGGGAAAGGGGACTTGTGGATTTTTTCTCATTTGCTTGCTTTCAG
Seq C2 exon
AATCAGAAACTATCCCTCTTGTGATGAAAGCTGTCTCTGGGTCCATTGTCCTTGTCATTGTGCTGGCTGGAGTTGGTGTTCTAGTCTGGAGAAGAAGGCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000153029-MR1:NM_001194999:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF064417=EHN=FE(52.9=100),PF0765410=C1-set=WD(100=88.2)
A:
NA
C2:
PF064417=EHN=PD(9.2=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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:
GCCCCCACTGGTCAGAGTAAA
R:
CAGCCAGCACAATGACAAGGA
Band lengths:
344-1406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)