HsaINT0104904 @ hg19
Intron Retention
Gene
ENSG00000153029 | MR1
Description
major histocompatibility complex, class I-related [Source:HGNC Symbol;Acc:4975]
Coordinates
chr1:181018188-181019422:+
Coord C1 exon
chr1:181018188-181018448
Coord A exon
chr1:181018449-181019146
Coord C2 exon
chr1:181019147-181019422
Length
698 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
GGCTTCTGTGTGTGTTCCAGGGT
3' ss Score
10.08
Exon sequences
Seq C1 exon
GGACGCACTCTCTGAGATATTTTCGCCTGGGCGTTTCGGATCCCATCCATGGGGTCCCTGAATTTATTTCGGTTGGGTACGTGGACTCGCACCCTATCACCACATATGACAGTGTCACTCGGCAGAAGGAGCCACGGGCCCCATGGATGGCAGAGAACCTCGCGCCTGATCACTGGGAGAGGTACACTCAGCTGCTGAGGGGCTGGCAGCAGATGTTCAAGGTGGAACTGAAGCGCCTACAGAGGCACTACAATCACTCAG
Seq A exon
GTGTGCATGCGGCAGAGACAGACGCTTCCCCCATCCCACCCCAACCCGCAGAGACCCCTGGGCTGGCCTCCAATAAGCGGATGCTGAATTGCACCTGCTGTAGCTTTGGCAAAGCCTGAGGAATCAGGTTGGTGGAGTTCAGGGCCTCCCATCTGCCTGTGCATCTTCTGGACTGTCCCTCTCTCCCCCAGGAGCACTCTGTCATTTGCCCCACCCACTCTTCCCCATCTCTGTATCCGTATCTGCATCCCATTTCCACTCAGGCTTCTGATATGCATCTCCTTTTCCATTCTAAATTTGCCCATTCTGCGTCTCACTTCCTGGTAGTCAGGCCTAGTGACTTGCTTATGAGTATCGACAGTAACTTTCCCAGGGGTATTTCTGGCTCCTGCATCTCTCTCCCTCCTCCACTGCAGTCAGAATAGCCACAAAGTTTATCAGTCATTCCCATTACAGGATAACTCCCCAAGGCGGGAATTAGCACACTCCTTTGACAGGCAGTAGGTACTTCACAGATACCTGCTGACAGGTGGGCTTCCATAAGGGGGACCTCCTGGGGACTCAGCGATGCCATGGCAGGCCTGGGGGGTGACATAATGTAGACCAAAGGATGCTTCCAGCCATGCCCCTGCTCCCAGCACTTGAGAGCCCACCTCTGTCTCTGTGTGGACCCCTCTGGGCTTCTGTGTGTGTTCCAG
Seq C2 exon
GGTCTCACACTTACCAGAGAATGATTGGCTGTGAGCTGCTGGAGGATGGAAGCACCACAGGATTTCTGCAGTATGCATATGACGGGCAGGATTTCCTGATCTTCAATAAAGACACCCTCTCCTGGCTGGCTGTAGATAATGTGGCTCACACCATCAAGCAGGCATGGGAGGCCAATCAGCATGAGTTGCTGTATCAAAAGAATTGGCTGGAAGAAGAATGTATTGCCTGGCTAAAGAGATTCCTGGAGTATGGGAAAGACACCCTACAAAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000153029-MR1:NM_001195035:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.001
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(89.7=98.9),PF064417=EHN=PU(10.3=20.5)
A:
NA
C2:
PF0012913=MHC_I=PD(50.0=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCGCACCCTATCACCACAT
R:
ATGCCTGCTTGATGGTGTGAG
Band lengths:
342-1040
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)