Gene loci information

Transcript annotation

  • This transcript has been annotated as Tubulin alpha-2 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_4 g14768 g14768.t2 TTS g14768.t2 2249284 2249284
chr_4 g14768 g14768.t2 isoform g14768.t2 2249548 2251448
chr_4 g14768 g14768.t2 exon g14768.t2.exon1 2249548 2249994
chr_4 g14768 g14768.t2 cds g14768.t2.CDS1 2249548 2249994
chr_4 g14768 g14768.t2 exon g14768.t2.exon2 2250144 2251448
chr_4 g14768 g14768.t2 cds g14768.t2.CDS2 2250144 2250941
chr_4 g14768 g14768.t2 TSS g14768.t2 NA NA

Sequences

>g14768.t2 Gene=g14768 Length=1752
ATGAAATGTATGGTGATATAATTAGTACTTGATTGTATTTATTTTGAAATGGAATATTGA
TGGAATCATAATTGATATAAAAATTTTAAATTCTCTCTAAATAATTTAATATTTTTCATT
CGTAAATGTGCAAAAAATTATAAATTTTAATAAATTGTGTGCGGATCACCGATCTCATCA
ACTTATTTTGAAAATTTTGAAAAAAATATAAGTAAAAGCTTGGCAAAAAATTCGGAAAAT
TCTGCAAAAACCATTCTATAAAATTTACCAAAAAATTTTGCCACAAATAAATTTGTGGGA
TAAACAATTCAAAACCAAATATTTTTCTTAATTTTTTCTTTTCTAAATTTGAGAATTTTA
AAACTAAATTTCACTAAAACTTTCTTTAAATTCTTCTATTTTCAGCGTGAATGTATTTCA
GTCCATATCGGTCAAGCTGGTGTTCAAATTGGCAATGCCTGTTGGGAACTTTACTGTCTT
GAACATGGAATTCAGCCAGATGGTCAAATGCCATCAGACAAGACAATTGGAGGTGGTGAT
GATTCATTTAATACTTTCTTCTCTGAAACTGGAAGTGGCAAGCATGTTCCACGTGCTGTC
TTTGTTGACTTGGAACCAACTGTAGTTGATGAAGTTCGTACTGGAACTTATCGTCAACTT
TTTCATCCTGAACAATTGATTACTGGCAAAGAAGATGCTGCCAATAATTATGCTCGTGGT
CATTATACAATTGGCAAAGAAATTGTCGACATTGTTTTGGATCGCATTCGTAAATTGGCT
GATCAATGTACTGGCTTGCAAGGATTTCTTGTTTTCCATTCATTCGGTGGTGGCACTGGA
TCAGGTTTCACATCACTTTTAATGGAACGTTTGTCAGTTGATTATGGCAAGAAGTCAAAA
CTTGAATTCTCAATCTATCCAGCACCACAAGTTTCAACTGCTGTTGTTGAGCCTTACAAT
TCAATTCTCACAACTCATACAACTTTGGAACATTCCGATTGTGCATTCATGGTCGATAAT
GAAGCCATTTATGACATTTGTCGCCGAAATCTTGACATTGAACGTCCAACTTATACAAAT
TTGAACCGCTTGATTGGTCAAATTGTTTCATCAATAACTGCATCACTCAGATTCGACGGT
GCATTAAATGTCGACTTGACAGAATTCCAAACCAACTTGGTGCCTTATCCACGTATTCAT
TTCCCATTGGCAACTTATGCACCAGTTATTTCAGCTGAAAAAGCTTATCATGAACAATTG
ACTGTTGCTGAAATTACAAATGCTTGCTTTGAGCCAGCTAATCAGATGGTAAAATGCGAT
CCACGCCACGGCAAATACATGGCCTGCTGCATGTTGTACAGAGGTGATGTTGTTCCAAAA
GATGTCAATGCAGCTATTGCTACAATCAAGACCAAGCGAAGCATTCAATTTGTTGATTGG
TGTCCAACTGGTTTCAAAGTCGGCATCAACTATCAGCCACCAACTGTCGTTCCTGGTGGT
GATTTGGCTAAAGTTCAACGTGCTGTTTGCATGTTGTCAAATACAACAGCTATTGCTGAA
GCTTGGGCTCGTTTGGATCATAAATTTGATTTAATGTATGCCAAGCGTGCTTTTGTCCAT
TGGTATGTTGGTGAAGGTATGGAAGAAGGCGAATTCTCTGAAGCACGTGAAGATTTGGCT
GCTTTGGAGAAAGATTATGAGGAAGTTGGTGTTGATTCAACTGAAGAAGTCGGTGAAGGA
GACGAATACTAA

>g14768.t2 Gene=g14768 Length=414
MPSDKTIGGGDDSFNTFFSETGSGKHVPRAVFVDLEPTVVDEVRTGTYRQLFHPEQLITG
KEDAANNYARGHYTIGKEIVDIVLDRIRKLADQCTGLQGFLVFHSFGGGTGSGFTSLLME
RLSVDYGKKSKLEFSIYPAPQVSTAVVEPYNSILTTHTTLEHSDCAFMVDNEAIYDICRR
NLDIERPTYTNLNRLIGQIVSSITASLRFDGALNVDLTEFQTNLVPYPRIHFPLATYAPV
ISAEKAYHEQLTVAEITNACFEPANQMVKCDPRHGKYMACCMLYRGDVVPKDVNAAIATI
KTKRSIQFVDWCPTGFKVGINYQPPTVVPGGDLAKVQRAVCMLSNTTAIAEAWARLDHKF
DLMYAKRAFVHWYVGEGMEEGEFSEAREDLAALEKDYEEVGVDSTEEVGEGDEY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
30 g14768.t2 CDD cd02186 alpha_tubulin 1 400 0.0
29 g14768.t2 Gene3D G3DSA:3.40.50.1440 - 1 233 3.3E-110
28 g14768.t2 Gene3D G3DSA:3.30.1330.20 - 234 348 6.3E-68
27 g14768.t2 Gene3D G3DSA:1.10.287.600 Helix hairpin bin 349 402 3.0E-34
3 g14768.t2 PANTHER PTHR11588:SF64 TUBULIN ALPHA-1C CHAIN 4 413 3.2E-290
4 g14768.t2 PANTHER PTHR11588 TUBULIN 4 413 3.2E-290
7 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 10 23 2.0E-110
23 g14768.t2 PRINTS PR01161 Tubulin signature 18 37 2.4E-80
15 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 53 66 2.0E-110
20 g14768.t2 PRINTS PR01161 Tubulin signature 60 71 2.4E-80
21 g14768.t2 PRINTS PR01161 Tubulin signature 73 97 2.4E-80
5 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 85 93 2.0E-110
22 g14768.t2 PRINTS PR01161 Tubulin signature 99 117 2.4E-80
11 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 113 125 2.0E-110
19 g14768.t2 PRINTS PR01161 Tubulin signature 118 139 2.4E-80
16 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 126 137 2.0E-110
24 g14768.t2 PRINTS PR01161 Tubulin signature 143 156 2.4E-80
18 g14768.t2 PRINTS PR01161 Tubulin signature 157 177 2.4E-80
10 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 179 191 2.0E-110
12 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 239 254 2.0E-110
9 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 286 307 2.0E-110
6 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 312 325 2.0E-110
14 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 325 344 2.0E-110
17 g14768.t2 PRINTS PR01161 Tubulin signature 345 373 2.4E-80
8 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 350 366 2.0E-110
13 g14768.t2 PRINTS PR01162 Alpha-tubulin signature 387 403 2.0E-110
1 g14768.t2 Pfam PF00091 Tubulin/FtsZ family, GTPase domain 12 178 1.9E-54
2 g14768.t2 Pfam PF03953 Tubulin C-terminal domain 228 357 1.4E-52
31 g14768.t2 ProSitePatterns PS00227 Tubulin subunits alpha, beta, and gamma signature. 107 113 -
32 g14768.t2 SMART SM00864 Tubulin_4 14 211 2.3E-83
33 g14768.t2 SMART SM00865 Tubulin_C_4 213 358 3.6E-61
25 g14768.t2 SUPERFAMILY SSF52490 Tubulin nucleotide-binding domain-like 4 209 3.79E-83
26 g14768.t2 SUPERFAMILY SSF55307 Tubulin C-terminal domain-like 211 401 3.02E-87

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
GO:0003924 GTPase activity 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