HsaALTA0005194-3/3 @ hg19
Alternative 3'ss
Gene
ENSG00000204520 | MICA
Description
MHC class I polypeptide-related sequence A [Source:HGNC Symbol;Acc:7090]
Coordinates
chr6:31378320-31379136:+
Coord C1 exon
chr6:31378320-31378574
Coord A exon
chr6:31378849-31379020
Coord C2 exon
chr6:31379021-31379136
Length
172 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
GCTTGCATTCCCTCCAGGAGATTAGGGTCTGTGAGATCCATGAAGACAACAGCACCAGGAGCTCCCAGCATTTCTACTACGATGGGGAGCTCTTCCTCTCCCAAAACCTGGAGACTGAGGAATGGACAGTGCCCCAGTCCTCCAGAGCTCAGACCTTGGCCATGAACGTCAG
Seq C2 exon
GAATTTCTTGAAGGAAGATGCCATGAAGACCAAGACACACTATCACGCTATGCATGCAGACTGCCTGCAGGAACTACGGCGATATCTAGAATCCGGCGTAGTCCTGAGGAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204520-5-11,5-10,5-9-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.208 A=NA C2=0.097
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 Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACAGGCAGAAATGCAGGG
R:
CTCAGGACTACGCCGGATTCT
Band lengths:
258-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)