HsaALTD1016358-1/3 @ hg38
Alternative 5'ss
Gene
ENSG00000123388 | HOXC11
Description
homeobox C11 [Source:HGNC Symbol;Acc:HGNC:5123]
Coordinates
chr12:53973823-53977643:+
Coord C1 exon
chr12:53973823-53973923
Coord A exon
NA
Coord C2 exon
chr12:53975181-53977643
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCAGTAGGT
5' ss Score
5.41
3' ss Seq
GCCCCCTCCCCTCCCTCCAGACG
3' ss Score
11.1
Exon sequences
Seq C1 exon
GGCGGGTGCCGAGGCGGAGGCTGAGGAGGAGAACACAAATCCCAGCTCGTCCGGTTCAGCCCACTCCGTGGCCAAGGAGCCGGCCAAAGGAGCCGCCCCCA
Seq A exon
NA
Seq C2 exon
ACGCCCCCCGCACCCGCAAGAAGCGCTGCCCTTATTCGAAATTCCAGATCCGGGAACTGGAGCGAGAGTTTTTCTTCAACGTGTATATCAACAAAGAGAAGCGGCTGCAGCTGTCCCGGATGCTGAACCTGACGGACCGACAAGTGAAAATTTGGTTTCAGAACAGAAGGATGAAAGAAAAGAAACTGAGCAGAGACCGGCTGCAGTATTTCTCGGGAAATCCTCTGCTGTAACCTGCAGACCGGGCCCTTTTGGGGGCGGGGGGAGGGGAAAATTATTTTATTTTATTTTTATTTTTTATTTTCTAACTCGTCTTCTTTCCGCCGGTGGAAAACTGGACTGTGGCCAGGGCTGGCCCCCACCGCTGTGGCCGGCACTCCATTCCGGAACCTCCTGGACCCTCTATCTGACTCTCGCTGTGGGACAGGGACCGGGCCTGGAAAGGGGGTGAAGGGAAGTGTCTGATGCACGGCGAGTGAACACCGTTGGCGCCGAGGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123388-0-0,1-0,2-0-1/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.422 A=NA C2=0.276
Domain overlap (PFAM):
C1:
PF120453=DUF3528=WD(100=62.7)
A:
NA
C2:
PF0004624=Homeobox=WD(100=73.1)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACACAAATCCCAGCTCGTCC
R:
CGAATAAGGGCAGCGCTTCTT
Band lengths:
108-112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains