General information for g13911.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Tubulin beta-3 chain.
Parent gene
- The parent gene g13911 is located on chr_1: 33337971..33338901 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g13911 | g13911.t7 | isoform | g13911.t7 | 33337971 | 33338894 |
| chr_1 | g13911 | g13911.t7 | exon | g13911.t7.exon1 | 33337971 | 33338894 |
| chr_1 | g13911 | g13911.t7 | cds | g13911.t7.CDS1 | 33338026 | 33338286 |
| chr_1 | g13911 | g13911.t7 | TTS | g13911.t7 | 33338892 | 33338892 |
| chr_1 | g13911 | g13911.t7 | TSS | g13911.t7 | NA | NA |
Sequences
>g13911.t7 Gene=g13911 Length=924
GATTCCAAATAACGTCAAGACAGCTGTTTGTGACATTCCACCTAAAGGATTGAAAATGTC
ATCGACTTTCATTGGAAACACTACTGCCATTCAAGAACTCTTCAAGCGCATTTCAGAACA
ATTCTCAGCTATGTTCCGTCGTAAAGCTTTCTTGCATTGGTACACTGGTGAAGGTATGGA
CGAAATGGAATTCACAGAAGCTGAAAGCAACATGAACGATCTTGTTAGCGAATACCAACA
ATACCAAGAAGCAACTGCTGATGATGAATTCGATGCTGATGTCGATGATGTTGAGCATGA
TGGCGAATGCGTGTAAACAATTTCAATTAATTGCCAACTTTTAACTTTTGGCGAGAGAAT
CGAGTGCAAAAAAAGAATTAATAATTTTTCCCCTTTTTCATAGATTATAATTTATTGAAT
ATCAATTTTATTCCCCTGTTTGTTTGTGAGTAAATTTCACCTCGCTAACAATCGTTTATG
CCTAAGGGGCAAATTTGAGATGATCATAAATATCAATAACAATCAGCACAATGTATATTC
GATAACATACATCTTTCTTTCTCTCTTGCTACCTCTCTAATTTAAATCCATTTCATTGCC
TCGTGCTCACTTATTGACTCCCTGCCGCCACCATCACAGGCCTGCCTCTCGCTAAATAAG
CACAATAATAAATACATACAATATAAAGTTCAGACACTCGAAGCACGTAAGCATGTTTAT
CATTTCATGACACACAAGGGAGTCAACTGGCTGGCACGAGTGAGAAGAGAGAAAGAAAGA
AAAATAAATATAATGAAAAGAGTTGAGTCCTTTAGGCAAAATTATATTATTTTATTATTG
TCATTAAATCGAGTGTTTTCAAGTCTCATTTTTCAATTTTTTTTAATTTCAAAAAATAAA
TAAATAACATCAAATTATATTCAT
>g13911.t7 Gene=g13911 Length=86
MSSTFIGNTTAIQELFKRISEQFSAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEY
QQYQEATADDEFDADVDDVEHDGECV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13911.t7 | Coils | Coil | Coil | 46 | 66 | - |
| 4 | g13911.t7 | Gene3D | G3DSA:1.10.287.600 | Helix hairpin bin | 12 | 83 | 8.5E-36 |
| 1 | g13911.t7 | PANTHER | PTHR11588 | TUBULIN | 1 | 79 | 1.4E-42 |
| 2 | g13911.t7 | PANTHER | PTHR11588:SF273 | TUBULIN BETA-3 CHAIN | 1 | 79 | 1.4E-42 |
| 3 | g13911.t7 | SUPERFAMILY | SSF55307 | Tubulin C-terminal domain-like | 1 | 67 | 3.36E-29 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005874 | microtubule | CC |
| GO:0007017 | microtubule-based process | BP |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
