HsaALTA1018660-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000116147 | TNR
Description
tenascin R [Source:HGNC Symbol;Acc:HGNC:11953]
Coordinates
chr1:175396554-175403616:-
Coord C1 exon
chr1:175403140-175403616
Coord A exon
chr1:175396704-175396807
Coord C2 exon
chr1:175396554-175396703
Length
104 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TGTGTATTGCCTCCCGGTAGTTG
3' ss Score
7.43
Exon sequences
Seq C1 exon
GACAACTGGACTATATCCCTCACTGCAGTGGCCACGGCAACTTTAGCTTTGAGTCCTGTGGCTGCATCTGCAACGAAGGCTGGTTTGGCAAGAATTGCTCGGAGCCCTACTGCCCGCTGGGTTGCTCCAGCCGGGGGGTGTGTGTGGATGGCCAGTGCATCTGTGACAGCGAGTACAGCGGGGATGACTGTTCCGAACTCCGGTGCCCAACAGACTGCAGCTCCCGGGGGCTCTGCGTGGACGGGGAGTGTGTCTGTGAAGAGCCCTACACTGGCGAGGACTGCAGGGAACTGAGGTGCCCTGGGGACTGTTCGGGGAAGGGGAGATGTGCCAACGGTACCTGTTTATGCGAGGAGGGCTACGTTGGTGAGGACTGCGGCCAGCGGCAGTGTCTGAATGCCTGCAGTGGGCGAGGACAATGTGAGGAGGGGCTCTGCGTCTGTGAAGAGGGCTACCAGGGCCCTGACTGCTCAGCAG
Seq A exon
TTGCCCCTCCAGAGGACTTGCGAGTGGCTGGTATCAGCGACAGGTCCATTGAGCTGGAATGGGACGGGCCGATGGCAGTGACGGAATATGTGATCTCTTACCAG
Seq C2 exon
CCGACGGCCCTGGGGGGCCTCCAGCTCCAGCAGCGGGTGCCTGGAGATTGGAGTGGTGTCACCATCACGGAGCTGGAGCCAGGTCTCACCTACAACATCAGCGTCTACGCTGTCATTAGCAACATCCTCAGCCTTCCCATCACTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116147-15-15,15-14-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079748=EGF_2=WD(100=16.9),PF079748=EGF_2=WD(100=16.9),PF079748=EGF_2=WD(100=17.5)
A:
NA
C2:
PF0004116=fn3=WD(100=87.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGATGTGCCAACGGTACCTG
R:
CGCTGATGTTGTAGGTGAGACC
Band lengths:
258-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains