GgaALTA1005962-2/3 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000000178 | BF1
Description
MHC class I alpha chain 1 [Source:UniProtKB/TrEMBL;Acc:A0ZXL5]
Coordinates
chr16:74610-75375:-
Coord C1 exon
chr16:75112-75375
Coord A exon
chr16:74748-74882
Coord C2 exon
chr16:74610-74747
Length
135 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CCTGCCCGGCTGTGTTTCAGGGT
3' ss Score
9.6
Exon sequences
Seq C1 exon
AGCTCCATACCCTGCGGTACATCCATACGGCGATGACGGATCCCGGCCCCGGGCAGCCGTGGTACGTGGACGTGGGGTATGTGGACGGGGAACTCTTCGTGCACTACAACAGCACCGCGCGGAGGTACGTGCCCCGCACCGAGTGGATGGCGGCCAAGGCGGACCAGCAGTACTGGGATGGACAGACGCAGATCGGACAGCGCAATGAGCGGAGTGTGAAAGTGAGCCTGGACACACTGCAGGAACGATACAACCAGACCGGCG
Seq A exon
GGTCTCACACGGTGCAGTGGATGTTCGGCTGTGACATCCTCGAGGATGGCACCATCCGGGGGTATCGTCAGGTGGCCTACGATGGGAAAGACTTCATTGCCTTCGACAAAGACATGAAGACGTTCACTGCGGCAG
Seq C2 exon
TTCCAGAGGCAGTTCCCACCAAGAGGAAATGGGAGGAAGGAGGTGTTGCTGAGGGGTGGAAGAGTTACCTGGAGGAAACCTGCGTGGAGTGGCTGCGGAGATACGTGGAATACGGGAAGGCTGAGCTGGGCAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000178-3-4,3-3,3-2-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.033
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.0=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(49.4=94.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTATGTGGACGGGGAACTCT
R:
AACTCTTCCACCCCTCAGCAA
Band lengths:
255-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]