HsaALTD1028335-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000154479 | CCDC173
Description
coiled-coil domain containing 173 [Source:HGNC Symbol;Acc:HGNC:25064]
Coordinates
chr2:169662280-169665052:-
Coord C1 exon
chr2:169665004-169665052
Coord A exon
chr2:169664663-169665003
Coord C2 exon
chr2:169662280-169662436
Length
341 bp
Sequences
Splice sites
5' ss Seq
GAAGTAATG
5' ss Score
0.91
3' ss Seq
TAATTATGTTTTTGCTTTAGAAT
3' ss Score
8.76
Exon sequences
Seq C1 exon
CAATCAAGACCTACTTGTGCCTGCCCAGCTCTTCCCAGGAGTCCCTCAT
Seq A exon
GTGAGTAATACTTTCTACCAAGTTTTCTTGGGATGTAGTGTCATCAGTCTGGACATCTGAACCAAATTTTGGGTAGTGGTCTTTCTTGCTTTTACAGGAGAACTATACAACATCTATATAAGCCCAAGAATCAGATCTGTGCTAGATAAGTACAGATTTGGAATCTTCAGAATGTGAATCAAGGATAGCAAGGAGCTGACTCAGGAAGAGCAAGGCGTTGACATATTCAACTCTGATTGCCTGGTGGAGGCTTCCCAATGCATTGTTTGAGAAGGACCAAGAATCAGCAGGAAAGAGTTTTGTGCTGGTTGCTGACTCTGCTTTGGGAATGGGAGCTGGAA
Seq C2 exon
AATAAAGGAACATGAGGAAGAAGAGGAAAGAAGGAAAAAATATGAAGAAAAAGATGCTGAGGAAATAAAGCGACAGAATGCATTATATGAAATTGAAATGAGAAAAAAACTAGAAAAGAAAAGAGAAGAGATGCATGAAAGCAGGAGACGGTTTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154479-11-18,12-18-2/2
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=0.280 A=NA C2=0.535
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138681=Trichoplein=FE(15.5=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
ENST00000447353fB11521
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
AAGACCTACTTGTGCCTGCCC
R:
AGAAACCGTCTCCTGCTTTCA
Band lengths:
200-541
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains