Gene loci information

Transcript annotation

  • This transcript has been annotated as Tubulin beta-1 chain.

Parent gene

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 g13912 g13912.t6 TTS g13912.t6 33362101 33362101
chr_1 g13912 g13912.t6 isoform g13912.t6 33362708 33366435
chr_1 g13912 g13912.t6 exon g13912.t6.exon1 33362708 33363338
chr_1 g13912 g13912.t6 cds g13912.t6.CDS1 33362708 33363283
chr_1 g13912 g13912.t6 exon g13912.t6.exon2 33363488 33363994
chr_1 g13912 g13912.t6 exon g13912.t6.exon3 33366379 33366435
chr_1 g13912 g13912.t6 TSS g13912.t6 33366633 33366633

Sequences

>g13912.t6 Gene=g13912 Length=1195
ATGCGTGAAATCGTTCATATTCAAGCTGGTCAATGCGGAAACCAAATTGGAGCAAAGTTT
TGGGAAATTATTTCTGATGAGCATGGAATTGACGCAACTGGCGCCTATCATGGCGATTCT
GACTTGCAATTAGAGCGCATCAATGTCTACTATAATGAGGCATCAGGTGGCAAATACGTT
CCACGTGCTGTTTTGGTTGATTTGGAACCAGGTACTATGGATTCAGTTCGTTCTGGTCCA
TTTGGTCAGATTTTCCGACCAGACAACTTTGTTTTCGGTCAATCTGGTGCTGGTAACAAT
TGGGCAAAGGGTCATTACACTGAAGGAGCCGAACTCGTAGATTCAGTTTTGGATGTTGTC
CGCAAAGAAGCTGAGTCATGCGATTGTTTACAAGGATTCCAATTGACACATTCTCTCGGA
GGTGGTACAGGTTCAGGAATGGGAACACTTTTGATTTCAAAGATTCGTGAAGAATATCCA
GATCGTATTATGAACACCTATTCAGTGGTGCCATCACCAAAAGTATCAGACACAGTCGTT
GAGCCCTACAATGCAACACTTTCACTGCCTTCGTTTTCCTGGTCAACTGAACGCTGATTT
GCGTAAATTGGCTGTCAACATGGTTCCATTCCCGCGTCTTCACTTCTTCATGCCAGGTTT
TGCTCCACTCACATCACGTGGCTCACAACAGTATCGTGCATTGACAGTTCCAGAATTGAC
ACAACAAATGTTTGATGCCAAGAATATGATGGCTGCCTGTGATCCAAGACATGGTCGTTA
TCTCACAGTCGCTGCTGTTTTTCGTGGACGTATGTCAATGAAGGAAGTCGACGAACAAAT
GCTTAACATTCAAAACAAGAACAGCAGTTACTTCGTCGAATGGATTCCAAATAACGTCAA
GACAGCCGTTTGTGACATTCCACCACGTGGTCTCAAAATGAGTGCTACATTCATCGGTAA
CTCAACTGCCATCCAAGAACTCTTCAAGCGCATTTCAGAACAATTCACTGCTATGTTCCG
TCGTAAAGCTTTCTTGCATTGGTACACTGGTGAAGGTATGGACGAAATGGAATTCACAGA
AGCTGAAAGCAACATGAACGATCTTGTTAGCGAATACCAACAATACCAAGAAGCAACTGC
TGACGAAGATGCCGAATTCGATGAAGAACAAGAAGCTGAAGTTGATGAAGCTTAA

>g13912.t6 Gene=g13912 Length=191
MVPFPRLHFFMPGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAACDPRHGRYLTVAAV
FRGRMSMKEVDEQMLNIQNKNSSYFVEWIPNNVKTAVCDIPPRGLKMSATFIGNSTAIQE
LFKRISEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQEATADEDAEF
DEEQEAEVDEA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g13912.t6 Coils Coil Coil 152 172 -
12 g13912.t6 Gene3D G3DSA:3.30.1330.20 - 4 117 1.1E-58
11 g13912.t6 Gene3D G3DSA:1.10.287.600 Helix hairpin bin 118 189 5.8E-36
16 g13912.t6 MobiDBLite mobidb-lite consensus disorder prediction 171 191 -
15 g13912.t6 MobiDBLite mobidb-lite consensus disorder prediction 172 191 -
2 g13912.t6 PANTHER PTHR11588:SF279 TUBULIN BETA-4 CHAIN 1 185 1.1E-125
3 g13912.t6 PANTHER PTHR11588 TUBULIN 1 185 1.1E-125
7 g13912.t6 PRINTS PR01163 Beta-tubulin signature 9 25 4.1E-62
5 g13912.t6 PRINTS PR01163 Beta-tubulin signature 55 73 4.1E-62
8 g13912.t6 PRINTS PR01163 Beta-tubulin signature 73 87 4.1E-62
9 g13912.t6 PRINTS PR01163 Beta-tubulin signature 91 114 4.1E-62
4 g13912.t6 PRINTS PR01163 Beta-tubulin signature 121 132 4.1E-62
6 g13912.t6 PRINTS PR01163 Beta-tubulin signature 156 174 4.1E-62
1 g13912.t6 Pfam PF03953 Tubulin C-terminal domain 5 126 1.8E-43
14 g13912.t6 SMART SM00865 Tubulin_C_4 1 127 1.4E-40
10 g13912.t6 SUPERFAMILY SSF55307 Tubulin C-terminal domain-like 1 173 1.22E-79

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
GO:0005525 GTP binding MF
GO:0005200 structural constituent of cytoskeleton MF

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. There were no conditions that were differentially expressed