HsaALTA0008600-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000106799 | TGFBR1
Description
transforming growth factor beta receptor 1 [Source:HGNC Symbol;Acc:HGNC:11772]
Coordinates
chr9:99128855-99132703:+
Coord C1 exon
chr9:99128855-99129100
Coord A exon
chr9:99132497-99132508
Coord C2 exon
chr9:99132509-99132703
Length
12 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TGATGTTTATTTCACTCGAGGCC
3' ss Score
2.19
Exon sequences
Seq C1 exon
CGTTACAGTGTTTCTGCCACCTCTGTACAAAAGACAATTTTACTTGTGTGACAGATGGGCTCTGCTTTGTCTCTGTCACAGAGACCACAGACAAAGTTATACACAACAGCATGTGTATAGCTGAAATTGACTTAATTCCTCGAGATAGGCCGTTTGTATGTGCACCCTCTTCAAAAACTGGGTCTGTGACTACAACATATTGCTGCAATCAGGACCATTGCAATAAAATAGAACTTCCAACTACTG
Seq A exon
GCCCTTTTTCAG
Seq C2 exon
TAAAGTCATCACCTGGCCTTGGTCCTGTGGAACTGGCAGCTGTCATTGCTGGACCAGTGTGCTTCGTCTGCATCTCACTCATGTTGATGGTCTATATCTGCCACAACCGCACTGTCATTCACCATCGAGTGCCAAATGAAGAGGACCCTTCATTAGATCGCCCTTTTATTTCAGAGGGTACTACGTTGAAAGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000106799-12-14,12-13-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.069
Domain overlap (PFAM):
C1:
PF0106418=Activin_recp=WD(100=97.6),PF085157=TGF_beta_GS=PU(7.7=1.2)
A:
NA
C2:
PF085157=TGF_beta_GS=PU(58.6=21.8)
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:
TTGCTGCAATCAGGACCATTG
R:
CAATGACAGCTGCCAGTTCCA
Band lengths:
95-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development