HsaINT0104898 @ hg19
Intron Retention
Gene
ENSG00000153029 | MR1
Description
major histocompatibility complex, class I-related [Source:HGNC Symbol;Acc:4975]
Coordinates
chr1:181019282-181021646:+
Coord C1 exon
chr1:181019282-181019422
Coord A exon
chr1:181019423-181021370
Coord C2 exon
chr1:181021371-181021646
Length
1948 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CTTTAGCTTCTTCTTCCTAGAGC
3' ss Score
5.66
Exon sequences
Seq C1 exon
ATAATGTGGCTCACACCATCAAGCAGGCATGGGAGGCCAATCAGCATGAGTTGCTGTATCAAAAGAATTGGCTGGAAGAAGAATGTATTGCCTGGCTAAAGAGATTCCTGGAGTATGGGAAAGACACCCTACAAAGAACAG
Seq A exon
GTAAAGAGAAAGAGAAGGCCTCATTCCCACATTGCCTGAACAACTGTTTTTATACGTAACTCTTTTAATCTAGGTTATATCCACTGTATCCTGAAAGCCATCTCTTTAGTTGGCCTATTGTGATCTCATGGCTAGAGCCCCCACGAAAACTTTCCCTGGTTACTTTTGAGCAGCATCTTGACAAGATTTGACAGTTCCCCTTGTCTTGACAGAGTGGAGTACCTCCAAGGGCACCTTGTTTTTAGGGATCTATTGAGGCAAATTCTTCCATTCCGTCAATGATAAGCTGGGAAATTCTTTGGGAGATAGAGCAATTCTTACAAACTGTTTAGTTAACAAAGGGCTCACACACCACCAGTAGGAGTAAAAATCTGGATTTACCAAGACAAACAGAAGGTCTCTGCTTTACTAAAGGATTAATGAGGTTGGGCATGATGGCTCATGCCTGTAATCCTAGCACTTTGGGAGGCTGAGGCAGGAGGATTGCTTAAGGCCAGGAGTTTAAGACTGGCCTGGGTAACATTGTGAGACCCTGTCTCTATTAAAAAAAAAATTAGCTGAGCATGGTGGCACATGACTGTAGTCCCAGATACTCAGGAGGCTGAGGTGGGAGGATCTCTTGAGCCTGGAAGGTCAAGGCTGCAGTGAGCCATGATCATGATCAGCCTGGGTCACAGAGCAAGACCCTATTTAAAAAAAAAAAAAAGTATTAATGATAAGATTCCTTTCAGCAAAGAGCTCCTCTTATACCTTAAAGATATGATTCAGTTGGTCAACTTTTAGTTCATATAGAACTTTTCATGTATGGTCTTGTTATTCAAAATTAATCACACCTGTATGATGCTACAGGAAACTCCTAGATACAATGTGTGTGGGAAGAGTATGGGAAGCTCCCCTCTCCAGGCCTCTGTCTACATTCAGTGTCCTAATGGATTTTCAACCTTTTGGTCAAAACACACTCCTAAAAAAACAAACAAAAAAAAAAAAGAAAAGAAAAAACACATTCCTAGAAAAGGATCTTGGATTAATTTCTTACAGGCCCTATCAAAAAGCACAGTCCCTCCTAGTAGCATTTATTTTACTTTTAATGTTGGAAAGCCTTTTTCTACTACCAAATATCATGCCTCGGTAAAGAGACAAGGAAAGCATTGTTGGAGTGAAGGCTCTTCTCCGTATTGGGTTGGCCGATGATAAGGTGGGGGTCAGGAGGCAAGTCAGAGATGAGCAGGAAGCAGTCCCCCCCAGATAGTGCCTTTGGTCTCGGTATGGCTGTTTGACCCAATTTCAGCAAGAAACATTAAGGACAGGACTGTATGGAAAATTAAGAGTAGTCATGAGGAAGCAAGGTCACACGTGGGTACTTCTTTGGTGTCACTGCTGGAGCCCTTCTATGATATCAGTTTCTTCGAAGGCACAACCATGGCATGATCTACTACATATGTTTGTACCTGATGGCAGTCATCAAAATGCCAGCGCAAGTACACAAGGCAATTCGGAGCCAAAACTGAGTGGGGATGGCTGTGTTATTTACGTGCACTAAACACAGAAATGAGAACAAGGAGTTCTAATCTCCAATCTATTGCTGACTTACTTATTGGGAACAGTCACTTACACATTTTATGGGTCAGTTTTCCTTGACACATAAAGGTATTTCAAAGGTTACTAGTAAACAACCCCAGCACACTTTCCAAACAGTCAAAGCTGTATGACTTTCCCCCCTTAGAGGATGGAGCATGGGCCAACTCCACATTCTTCACTACCTAGCACCTTGCCATCATGGAAGGTATACGTAAATACGTTTGTTGTTGATGAACCTGAGTTCTGGGTCATTCTTAGCTTTAGAAGTTTCCTGCAATAAAGAAAAATTAGGAAAGCCAGTTGCCAAGTTCTAATATTATATGCTCAGTACATAAGGCACTTTGATTTAACTTTAGCTTCTTCTTCCTAG
Seq C2 exon
AGCCCCCACTGGTCAGAGTAAATCGCAAAGAAACTTTTCCAGGGGTTACAGCTCTCTTCTGCAAAGCTCATGGCTTTTACCCCCCAGAAATTTACATGACATGGATGAAAAACGGGGAAGAAATTGTCCAAGAAATTGATTATGGAGACATTCTTCCCAGTGGGGATGGAACCTATCAGGCGTGGGCATCAATTGAGCTTGATCCTCAGAGCAGCAACCTTTACTCCTGTCATGTGGAGCACTGCGGTGTCCACATGGTTCTTCAGGTCCCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000153029-MR1:NM_001194999:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(9.3=18.8),PF064417=EHN=FE(27.0=100)
A:
NA
C2:
PF064417=EHN=FE(52.9=100),PF0765410=C1-set=WD(100=88.2)
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:
CTCACACCATCAAGCAGGCAT
R:
AGGTTGCTGCTCTGAGGATCA
Band lengths:
352-2300
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)