HsaINT0175312 @ hg19
Intron Retention
Gene
ENSG00000101162 | TUBB1
Description
tubulin, beta 1 class VI [Source:HGNC Symbol;Acc:16257]
Coordinates
chr20:57598545-57601709:+
Coord C1 exon
chr20:57598545-57598655
Coord A exon
chr20:57598656-57598759
Coord C2 exon
chr20:57598760-57601709
Length
104 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
GTTTCTCTTTTTGGCCACAGGTA
3' ss Score
9.92
Exon sequences
Seq C1 exon
GTAGGAAATATGTGCCCCGAGCAGTCTTGGTGGACCTAGAACCTGGGACGATGGACAGCATTCGATCTAGCAAATTAGGAGCTCTCTTTCAACCCGACAGTTTTGTCCATG
Seq A exon
GTATGTTTTTCCAGAAGGTTCCACCAGGAGGAGGGGGGGATGCTTTACTGGTGCCCTTCTCTTTTCACCTTTCTTCCCCTGCTGGTTTCTCTTTTTGGCCACAG
Seq C2 exon
GTAACTCTGGGGCTGGCAACAACTGGGCCAAAGGCCACTACACGGAGGGAGCCGAGCTGATCGAGAATGTCCTAGAGGTGGTGAGGCACGAGAGTGAGAGCTGTGACTGCCTGCAGGGCTTCCAGATCGTCCACTCCCTGGGCGGGGGCACAGGCTCCGGGATGGGCACTCTGCTCATGAACAAGATTAGAGAGGAGTACCCGGACCGGATCATGAATTCCTTCAGCGTCATGCCTTCTCCCAAGGTGTCGGACACTGTGGTGGAGCCCTACAACGCGGTTCTGTCTATCCACCAGCTGATTGAGAATGCAGATGCCTGTTTCTGCATTGACAATGAGGCCCTCTATGACATCTGCTTCCGTACCCTGAAGCTGACGACACCCACCTATGGGGATCTCAACCACCTAGTGTCCTTGACCATGAGCGGCATAACCACCTCCCTCCGGTTCCCGGGTCAGCTCAACGCAGACCTGCGCAAGCTGGCGGTGAACATGGTCCCCTTCCCCCGCCTGCACTTCTTTATGCCCGGCTTTGCCCCACTCACGGCCCAGGGCAGCCAGCAGTACCGAGCCCTCTCCGTGGCCGAGCTCACCCAGCAGATGTTCGATGCCCGCAATACCATGGCTGCCTGTGACCTCCGCCGTGGCCGCTACCTCACAGTGGCCTGCATTTTCCGGGGCAAGATGTCCACCAAGGAAGTGGACCAGCAACTGCTCTCCGTGCAGACCAGGAACAGCAGCTGCTTTGTGGAGTGGATTCCCAACAACGTCAAGGTGGCTGTCTGCGACATCCCGCCCCGGGGGCTGAGCATGGCCGCCACCTTCATTGGCAACAACACGGCCATCCAAGAGATCTTTAATAGGGTCTCTGAGCATTTCTCAGCCATGTTCAAAAGGAAAGCTTTTGTGCACTGGTACACCAGCGAAGGGATGGACATAAACGAATTTGGGGAAGCTGAAAATAACATCCATGATTTGGTATCCGAGTACCAACAATTTCAAGATGCCAAAGCAGTTCTAGAGGAAGATGAAGAGGTCACGGAGGAGGCAGAAATGGAGCCAGAAGATAAGGGACATTAACTGTGAGAGAAGCTGTGCCGCGGAGTCGCTTACAGAACAGTTTCTCATTAGATGAGTGTTTCTCCTGCAGCACTCCAAAACCCACTCTGCACTGCAGCACAGTGAATGATATGCACTCACCATTAGCTTCGACACAGGGACTGAGGGAGACAGGTGGGGAGCAGCTGACAGGCATTAGGGTCTTTGCTGACATCTACTAACCTTGAAGAGTTTGATGTTCAGTGCATACTTATTAACTTAAAAAAATAGCAAATTTATTGTAAAGTGCTCCCTTTGTTTCAAAGTGTTTGCCAGGCATCCAGACTACACGTGTGGATTTGCAGGGAGCCACTGGAGTTGGTGTTACATTTTTATACTTTAGCAGCACTGATAGGCACCCTGGAATCCTCACTTGGTATCCGAGGGCTACTAAGACTCTTTCCTTAGGTTCTTTCCTCTGAGCAAACACTGACTGGCATCCTGCTTTCCAGTGCCTGCCAGCCTCCAGAAGAGCCAGGTGCCTGACTAGTACATGGGGAGCTACAGAGCCAAGGTCAATGTGAGTCAACATCCACTAGAAATATCCATGTTGTGTAGACCTGTGCATACAACATGCTAACTGGAAAAGAGGAAAAAAGAAAAGCCACAGTCCTCTCCACAAAAATACCTGGTCCAAACAAGAAAAACAAAAAGACAAGCAAAACTAAAGAACTGCAGTCTTCTGATCTTTATTTCTGAAGAGCTAGCCTTTAACATATATGTTTATATAGTTTAAATTTCTTACTACTGTTAGATCCCAGGAATTCATTAATAATCATCCTTGGCTTTCCTTTTAAAGGCTATTTTGAAATGGTCTTTTCACTTTCATTCAGTCATCACCCCCCAAAATGCTCTGCAGCCTCTCTGCTCTTTGAGAAAGGGCACACCATGCGCTCGGCAACCATTCAAATGCAGGAATTAAGCAGCAATGGCTGCAGTGTCCTTCTCAGTTATGGAGGACATCGTCTCATTAGGGAACTTTTACAGTTCAAATTAATTTGCAGAAGTTGCCATAAATGTTTGCATAATGACATAGCTTTAAGCACTACATGATTTTAATCTGCTCACATTATAACAGGACCAAATACACAAGAGCGTAATCAAATCATCTGTAACTTCTTAATTACAGTTTACCTATTTCTGACATGCAGCACTGCCATCTCTTCCAGCACCATCAGGGTTTTAATGGCCCTCTAGAATTACCACTGAGATACACTATTTGATCCATGGATAACCGGTAATGGGAAAATGCTCCGACCCTCAATGCAGTAAATATTTACTTGCAGGCAACTGGGTTCTCATCTCTTGATTTGCTTTTGTAATCAGCAATAATAAAATAGCAGGTAGATGGATGACAGTTGCTCATTCTGAGAAACTTCACTCTTTTCACTTATGCATCACGAGGAAATAACTAAAATACATACCAAGAGAAAAATACCTTGCCATCGGATCATCAACAAGTCTTCTATTTACAAACTTCAAAAAACACAAAACAACATTCATGTTTTAAATGCTTTCTACTTGTGGTTCAAGAAGCACTAGATTTAGTAAGAAACTCTACCTATATACTTAGTTTGAAGTTAGTAACTTCCTGAGATGCTAAAGACTTACAGCCTGCGATTATACAAGGATTTACACATGCTTCCTCTGGTGCTTTACTTCCCAAACCTAAAAAAGCAATGAAATAGATGTAAGGAAGGAGGGATTTAAACCTTTTAAAAAACTTTTGCTGACTTATATTACTGTAAAGATTTGTTTGCTCAATAGTAATCATTAAACTACAAAGTAATTCAATTTTAAATGGCAAAATTGCTTTATTTCAGACTAAATAAATTCCTTTTCTTGAAGCCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101162-TUBB1:NM_030773:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.058
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=36.4),PF0395312=Tubulin_C=WD(100=34.2)
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:
CTGGGACGATGGACAGCATTC
R:
TTGTTCATGAGCAGAGTGCCC
Band lengths:
253-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)