Gene loci information

Transcript annotation

  • This transcript has been annotated as Tubulin alpha-8 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_2 g6289 g6289.t1 isoform g6289.t1 15885320 15888343
chr_2 g6289 g6289.t1 exon g6289.t1.exon1 15885320 15885331
chr_2 g6289 g6289.t1 cds g6289.t1.CDS1 15885320 15885331
chr_2 g6289 g6289.t1 exon g6289.t1.exon2 15885509 15885550
chr_2 g6289 g6289.t1 cds g6289.t1.CDS2 15885509 15885550
chr_2 g6289 g6289.t1 exon g6289.t1.exon3 15886467 15886954
chr_2 g6289 g6289.t1 cds g6289.t1.CDS3 15886467 15886954
chr_2 g6289 g6289.t1 exon g6289.t1.exon4 15887247 15887861
chr_2 g6289 g6289.t1 cds g6289.t1.CDS4 15887247 15887861
chr_2 g6289 g6289.t1 exon g6289.t1.exon5 15888169 15888343
chr_2 g6289 g6289.t1 cds g6289.t1.CDS5 15888169 15888343
chr_2 g6289 g6289.t1 TSS g6289.t1 NA NA
chr_2 g6289 g6289.t1 TTS g6289.t1 NA NA

Sequences

>g6289.t1 Gene=g6289 Length=1332
ATGGCAAGAAGTAGAGAAGTCATTCAGCTTTATGTGGGACAAGCAGGAGTGCAGATCGCT
AGTGCCTGTTGGGAATTATATTGTTTAGAGCATGGAATTCATGCAGATGGAACAATGTGT
CAAGACAATGATATGGATAACGATTCAAATGCTTTCTTCAGTTGTTGTTATTGTCATTCA
ACAAAACATTTCAAGTGCGTACCACGTGTTATTCTTGTCGATCTCGAGCCAATACCAATT
GATGAAATTCGAACCGGATGTTATCGGCAGCTCTTCGATCCAGCGACATTGATAACTGGT
AAAGAGGATGCAGCAAGTAATTTTGGTCGTGGTTACAATACACTTGGATGTGAACTAATT
GATGCGACATTGGATAGAATTCGACGTGTATCGGAAAATTGTGATTGCTTACAAGGATTT
ATTACGACGAGATCAATAGGTGGTGGAACAGGAAGTGGCTTGGGAACTTTGATACAAGAA
AAAATCACTGATGAATACGGAAAAACTTGTAGGCATGAATTTAATATTTTTCCATCACCA
AAAATTTCACCAATAATAGTCGAGCCATATAATGCATTACTAGCAACACACTTTAGCATG
GATTATTCAGACTGTTGCATCTTACTCGACAACGAAGCAATTTACGATGTATGCGGATGC
TCGCTTGATGTTCCAAATCCTACTTATACAAATCTAAATCGTGTCATTAGTCAAGTCATA
TCAAGTTGTACCGCATCGATGCGTTTTTCTGGCGCCATAAATGTCGACATGCAAGAATTC
CAAACAAATCTCGTACCATATCCTCGTATACATTTTCCACTTTGCACATACGCGCCACTC
ATACCAGCGACGAAAGGCTCTTTGGCCGATCTCTCTACGCAGCAAATAACGCAATCGTGC
TTTCATCCACACACGCAACTTGTCAAGTGTGATCCAAGAAAGGGCAAATATATAAGTTGT
TGTATGCTCTATCGTGGCGATGCGGAGCCAACTGAAATTAATTTCTCCATCAGGGACATC
AAGCAGAAAAAGGCAATTCGTTTTGTCGATTGGAGTCCGACGTCATTTAAGATTGGCATC
AATTATCAGCCGCCAACTTGTGTGCCAGGTGGTGATTTGTGTACTGTCAATAGAGCTGTT
TGCATGCTATCGACAAACTCAGCGATTAGATGTGCATGGCAGAGAGTGTACAACAAATAT
AAGAGACTTTCCAAAAGGTCAGCATTCTCACATCATTTTGAGTGCGAGGGAATTGAAAAG
AACGACATGATGGAAGCTTCTGAGAACTTGTTAGCGCTGATTAAAGATTACGAAGAAGTT
GAATGTGACTAG

>g6289.t1 Gene=g6289 Length=443
MARSREVIQLYVGQAGVQIASACWELYCLEHGIHADGTMCQDNDMDNDSNAFFSCCYCHS
TKHFKCVPRVILVDLEPIPIDEIRTGCYRQLFDPATLITGKEDAASNFGRGYNTLGCELI
DATLDRIRRVSENCDCLQGFITTRSIGGGTGSGLGTLIQEKITDEYGKTCRHEFNIFPSP
KISPIIVEPYNALLATHFSMDYSDCCILLDNEAIYDVCGCSLDVPNPTYTNLNRVISQVI
SSCTASMRFSGAINVDMQEFQTNLVPYPRIHFPLCTYAPLIPATKGSLADLSTQQITQSC
FHPHTQLVKCDPRKGKYISCCMLYRGDAEPTEINFSIRDIKQKKAIRFVDWSPTSFKIGI
NYQPPTCVPGGDLCTVNRAVCMLSTNSAIRCAWQRVYNKYKRLSKRSAFSHHFECEGIEK
NDMMEASENLLALIKDYEEVECD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
31 g6289.t1 CDD cd02186 alpha_tubulin 5 440 0.0
30 g6289.t1 Coils Coil Coil 423 443 -
29 g6289.t1 Gene3D G3DSA:3.40.50.1440 - 4 273 2.6E-103
28 g6289.t1 Gene3D G3DSA:3.30.1330.20 - 274 388 1.3E-46
27 g6289.t1 Gene3D G3DSA:1.10.287.600 Helix hairpin bin 389 441 1.2E-12
3 g6289.t1 PANTHER PTHR11588:SF248 AT04270P 5 443 1.7E-196
4 g6289.t1 PANTHER PTHR11588 TUBULIN 5 443 1.7E-196
19 g6289.t1 PRINTS PR01161 Tubulin signature 13 33 4.4E-62
7 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 21 36 1.3E-52
18 g6289.t1 PRINTS PR01161 Tubulin signature 58 77 4.4E-62
10 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 93 106 1.3E-52
21 g6289.t1 PRINTS PR01161 Tubulin signature 100 111 4.4E-62
20 g6289.t1 PRINTS PR01161 Tubulin signature 113 137 4.4E-62
15 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 125 133 1.3E-52
17 g6289.t1 PRINTS PR01161 Tubulin signature 139 157 4.4E-62
12 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 153 165 1.3E-52
16 g6289.t1 PRINTS PR01161 Tubulin signature 158 179 4.4E-62
8 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 166 177 1.3E-52
22 g6289.t1 PRINTS PR01161 Tubulin signature 183 196 4.4E-62
23 g6289.t1 PRINTS PR01161 Tubulin signature 197 217 4.4E-62
13 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 219 231 1.3E-52
11 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 279 294 1.3E-52
6 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 326 347 1.3E-52
9 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 352 365 1.3E-52
5 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 365 384 1.3E-52
24 g6289.t1 PRINTS PR01161 Tubulin signature 385 413 4.4E-62
14 g6289.t1 PRINTS PR01162 Alpha-tubulin signature 427 443 1.3E-52
1 g6289.t1 Pfam PF00091 Tubulin/FtsZ family, GTPase domain 6 218 5.5E-57
2 g6289.t1 Pfam PF03953 Tubulin C-terminal domain 268 396 2.5E-39
34 g6289.t1 ProSitePatterns PS00227 Tubulin subunits alpha, beta, and gamma signature. 147 153 -
35 g6289.t1 ProSiteProfiles PS51257 Prokaryotic membrane lipoprotein lipid attachment site profile. 1 23 6.0
32 g6289.t1 SMART SM00864 Tubulin_4 49 251 2.6E-52
33 g6289.t1 SMART SM00865 Tubulin_C_4 253 398 1.8E-30
25 g6289.t1 SUPERFAMILY SSF52490 Tubulin nucleotide-binding domain-like 5 249 2.22E-78
26 g6289.t1 SUPERFAMILY SSF55307 Tubulin C-terminal domain-like 251 441 2.44E-60

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