HsaALTA0005194-7/7 @ hg38
Alternative 3'ss
Gene
ENSG00000204520 | MICA
Description
MHC class I polypeptide-related sequence A [Source:HGNC Symbol;Acc:HGNC:7090]
Coordinates
chr6:31410543-31411359:+
Coord C1 exon
chr6:31410543-31410797
Coord A exon
chr6:31411072-31411260
Coord C2 exon
chr6:31411261-31411359
Length
189 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCACTGCTGGGTGGGGGCAGGCT
3' ss Score
2.79
Exon sequences
Seq C1 exon
AGCCCCACAGTCTTCGTTATAACCTCACGGTGCTGTCCTGGGATGGATCTGTGCAGTCAGGGTTTCTTGCTGAGGTACATCTGGATGGTCAGCCCTTCCTGCGCTATGACAGGCAGAAATGCAGGGCAAAGCCCCAGGGACAGTGGGCAGAAGATGTCCTGGGAAATAAGACATGGGACAGAGAGACCAGGGACTTGACAGGGAACGGAAAGGACCTCAGGATGACCCTGGCTCATATCAAGGACCAGAAAGAAG
Seq A exon
GCTTGCATTCCCTCCAGGAGATTAGGGTCTGTGAGATCCATGAAGACAACAGCACCAGGAGCTCCCAGCATTTCTACTACGATGGGGAGCTCTTCCTCTCCCAAAACCTGGAGACTGAGGAATGGACAGTGCCCCAGTCCTCCAGAGCTCAGACCTTGGCCATGAACGTCAGGAATTTCTTGAAGGAAG
Seq C2 exon
ATGCCATGAAGACCAAGACACACTATCACGCTATGCATGCAGACTGCCTGCAGGAACTACGGCGATATCTAGAATCCGGCGTAGTCCTGAGGAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204520-6-12,6-11,6-10,6-9,6-8,6-7,6-6-7/7
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.149 A=NA C2=0.044
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.3=98.8)
A:
NA
C2:
PF0012913=MHC_I=PD(51.4=93.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
CTGCGCTATGACAGGCAGAAA
R:
TGTTCTCCTCAGGACTACGCC
Band lengths:
255-444
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains