HsaALTD1031468-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000163554 | SPTA1
Description
spectrin alpha, erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11272]
Coordinates
chr1:158620170-158623192:-
Coord C1 exon
chr1:158622983-158623192
Coord A exon
chr1:158622965-158622982
Coord C2 exon
chr1:158620170-158620466
Length
18 bp
Sequences
Splice sites
5' ss Seq
GAGGCATGA
5' ss Score
0.79
3' ss Seq
TCTTTTTTTTCTCTCTGCAGGCT
3' ss Score
12.9
Exon sequences
Seq C1 exon
GACACTCTGGATGCCAGTCTGCAGAGTTTCCAGCAAGAGAGACTTCCCGAGATCACTGACCTGAAGGACAAACTGATTTCTGCTCAACACAACCAGTCTAAAGCCATTGAAGAGCGTTATGCCGCTCTGCTGAAGCGCTGGGAACAGTTGCTGGAAGCCTCGGCAGTCCACAGACAGAAATTGCTGGAGAAACAGCTGCCTCTACAGAAG
Seq A exon
GTTTAAAAAAATTATGAG
Seq C2 exon
GCTGAGGACCTGTTCGTGGAATTTGCACATAAGGCTTCAGCTTTGAACAACTGGTGTGAAAAGATGGAAGAAAACTTGTCAGAGCCTGTGCACTGTGTCTCCCTGAATGAAATTCGGCAGCTGCAGAAAGACCATGAGGACTTCTTGGCCTCCCTGGCTAGGGCTCAAGCAGACTTTAAATGTTTGCTGGAGCTAGACCAGCAGATTAAGGCCTTAGGTGTGCCTTCCAGCCCTTATACCTGGTTAACAGTGGAGGTGCTGGAAAGGACCTGGAAGCACCTATCTGACATCATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000163554-57-54,58-54-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(58.5=88.6)
A:
NA
C2:
PF0043516=Spectrin=PU(91.4=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
GGAGAAACAGCTGCCTCTACA
R:
GTGCACAGGCTCTGACAAGTT
Band lengths:
118-136
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains