HsaINT0175321 @ hg19
Intron Retention
Gene
ENSG00000188229 | TUBB2C
Description
tubulin, beta 4B class IVb [Source:HGNC Symbol;Acc:20771]
Coordinates
chr9:140136363-140138159:+
Coord C1 exon
chr9:140136363-140136473
Coord A exon
chr9:140136474-140136947
Coord C2 exon
chr9:140136948-140138159
Length
474 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
TTAGCTGTGTTCTCTCACAGGTC
3' ss Score
10.53
Exon sequences
Seq C1 exon
GCGGCAAGTACGTGCCCCGCGCCGTGCTCGTGGATCTGGAGCCCGGCACCATGGACTCCGTGCGCTCGGGGCCCTTCGGGCAGATCTTCCGGCCGGACAACTTCGTTTTCG
Seq A exon
GTGAGCCGTGGCTGGGGACTGGGCGGCGGCTCAAAGGTCAAGGGGCTGCTCCAAGGGCACCGCCGTGGGAACTGCGCAGCCGGGGCCCCTGGACGCCCTCCTCTTCTCTGAGCCACTCAATCCCCTCTACTAAATCGGCTTTGGGAGCAAGGTCCAGCTGTCTGCCGAGGCGAGGAGCCGCCACACACGTAATCTCCCTGCAGGGAGCTGAGCTGGGGCAGTGGCTGTTCCTCTGTCCTTGGGAATTGGCAGTGGCCCCCCCGGGGAGGGGTTTGTTAAGCTGTCAGGTTTGGCCCCTGACTTAATTCGTAGCAGGGCAGGCTGCCGTCTTTTGGCTTTGAAGGGTCCGTTTGCTCTACCTCCAGGGTGAATTCTGTGGTCAGCTCACACCATGTCACTCGGCTTTTTTCGCATGGCGGTGACCAGTAGTGCTGTCTACCTGGCTGACAAATGATTAGCTGTGTTCTCTCACAG
Seq C2 exon
GTCAGAGTGGTGCTGGGAACAACTGGGCCAAGGGGCACTACACAGAAGGCGCGGAGCTGGTGGACTCGGTGCTGGATGTTGTGAGAAAGGAGGCTGAGAGCTGTGACTGCCTGCAGGGTTTCCAGCTGACCCACTCCCTGGGTGGGGGGACTGGGTCTGGGATGGGTACCCTCCTCATCAGCAAGATCCGGGAGGAGTACCCAGACAGGATCATGAACACGTTTAGTGTGGTGCCTTCGCCCAAAGTGTCAGACACAGTGGTGGAGCCCTACAACGCCACCCTCTCAGTCCACCAGCTCGTAGAAAACACAGACGAGACCTACTGCATTGATAACGAAGCTCTCTACGACATTTGCTTCAGAACCCTAAAGCTGACCACGCCCACCTATGGTGACCTGAACCACCTGGTGTCTGCTACCATGAGTGGGGTCACCACCTGCCTGCGCTTCCCAGGCCAGCTCAATGCTGACCTGCGGAAGCTGGCTGTGAACATGGTCCCGTTTCCCCGGCTGCACTTCTTCATGCCCGGCTTTGCCCCACTGACCAGCCGGGGCAGCCAGCAGTACCGGGCGCTGACCGTGCCCGAGCTCACCCAGCAGATGTTTGATGCCAAGAACATGATGGCTGCCTGCGACCCCCGCCATGGCCGCTACCTGACGGTTGCCGCCGTGTTCAGGGGCCGCATGTCCATGAAGGAGGTGGATGAGCAAATGCTTAATGTCCAAAACAAAAACAGCAGCTATTTTGTTGAGTGGATCCCCAACAATGTGAAAACGGCTGTCTGTGACATCCCACCTCGGGGGCTAAAAATGTCCGCCACCTTCATTGGCAACAGCACGGCCATCCAGGAGCTGTTCAAGCGCATCTCCGAGCAGTTCACGGCCATGTTCCGGCGCAAGGCCTTCCTGCACTGGTACACGGGCGAGGGCATGGACGAGATGGAGTTCACCGAGGCCGAGAGCAACATGAATGACCTGGTGTCCGAGTACCAGCAGTACCAGGATGCCACAGCCGAGGAGGAGGGCGAGTTCGAGGAGGAGGCTGAGGAGGAGGTGGCCTAGAGCCTTCAGTCACTGGGGAAAGCAGGGAAGCAGTGTGAACTCTTTATTCACTCCCAGCCTGTCCTGTGGCCTGTCCCACTGTGTGCACTTGCTGTTTTCCCTGTCCACATCCATGCTGTACAGACACCACCATTAAAGCATTTTCATAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188229-TUBB2C:NM_006088:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.102
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.0),PF0395312=Tubulin_C=WD(100=34.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGGACAACTTCGTTTTCG
R:
TGCAGTAGGTCTCGTCTGTGT
Band lengths:
347-821
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)