HsaALTA0005201-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000204516 | MICB
Description
MHC class I polypeptide-related sequence B [Source:HGNC Symbol;Acc:7091]
Coordinates
chr6:31473394-31474207:+
Coord C1 exon
chr6:31473394-31473648
Coord A exon
chr6:31473920-31474048
Coord C2 exon
chr6:31474049-31474207
Length
129 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TCACTGCTGGGTGGGGGCAGGCT
3' ss Score
2.79
Exon sequences
Seq C1 exon
AGCCCCACAGTCTTCGTTACAACCTCATGGTGCTGTCCCAGGATGGATCTGTGCAGTCAGGGTTTCTCGCTGAGGGACATCTGGATGGTCAGCCCTTCCTGCGCTATGACAGGCAGAAACGCAGGGCAAAGCCCCAGGGACAGTGGGCAGAAAATGTCCTGGGAGCTAAGACCTGGGACACAGAGACCGAGGACTTGACAGAGAATGGGCAAGACCTCAGGAGGACCCTGACTCATATCAAGGACCAGAAAGGAG
Seq A exon
GCTTGCATTCCCTCCAGGAGATTAGGGTCTGTGAGATCCATGAAGACAGCAGCACCAGGGGCTCCCGGCATTTCTACTACGATGGGGAGCTCTTCCTCTCCCAAAACCTGGAGACTCAAGAATCGACAG
Seq C2 exon
TGCCCCAGTCCTCCAGAGCTCAGACCTTGGCTATGAACGTCACAAATTTCTGGAAGGAAGATGCCATGAAGACCAAGACACACTATCGCGCTATGCAGGCAGACTGCCTGCAGAAACTACAGCGATATCTGAAATCCGGGGTGGCCATCAGGAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204516-2-4,2-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.119
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(47.8=98.8)
A:
NA
C2:
PF0012913=MHC_I=PD(10.4=18.5)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACAGTGGGCAGAAAATGT
R:
ATCGCTGTAGTTTCTGCAGGC
Band lengths:
245-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- 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)