Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative UBX domain-containing protein 1.

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 g4493 g4493.t15 TTS g4493.t15 2885280 2885280
chr_2 g4493 g4493.t15 isoform g4493.t15 2885341 2886452
chr_2 g4493 g4493.t15 exon g4493.t15.exon1 2885341 2885769
chr_2 g4493 g4493.t15 cds g4493.t15.CDS1 2885341 2885769
chr_2 g4493 g4493.t15 exon g4493.t15.exon2 2885828 2885934
chr_2 g4493 g4493.t15 cds g4493.t15.CDS2 2885828 2885875
chr_2 g4493 g4493.t15 exon g4493.t15.exon3 2886006 2886326
chr_2 g4493 g4493.t15 exon g4493.t15.exon4 2886403 2886452
chr_2 g4493 g4493.t15 TSS g4493.t15 2886450 2886450

Sequences

>g4493.t15 Gene=g4493 Length=907
ATGAGTGGCATTGAACAATTGGTCGAAATGGGTTTTCCAAGAGATAGAGCAGAAAAGGCA
TTAAGTTGCAATAATAATAATGTAGAACAAGCAATGGAATGGTTGTTAGTTCATAGTGAG
GATGATATGTCAAATGTTAATCCTCCAAATGAACCTAAGCCATTGGAAATAAAAAATGAT
GAGTCATCAAATGAACCTGCAGCAAATGCTACCACAAGTGAATCTGATCAAGCAATACCG
CAAGAAGCAAAGAGTATTAAGTGTGAAGACTGTGGTAAACTCTTCAAAACTACAATCGAA
ATAGAATTTCATGCAGCAAAATCTGGACATAGCAATTTCTCAGAATCTACAGAAGAGAAG
AAACCATTGACAACGTGAAAAACAAGAAGCATTAGAAAAGGAGCGGTTAAGAATTAAGAG
TGGTAAAGATATGAGTGAAGCTCGACGCAAATTGGAAGAAGAAGAAATGAAAAAGATTGT
AGAACAAAGAAAACGAGAAAAACAAGAAGAGAAAATTGCTAGAGAACGAGTTAAGGCTCA
AATTGAAGCAGATAAGGCAGCACGAAGAGCAAAAGCAGCAGGTCAACCACCGTCAATATC
AGAGCCAGTACAAGTACCAGTTCAAACACCACAAGTTACACCTCCACCAAAAGATTACAA
AGAAACAAAAATACAGATTCGTTTGCCCAATGGTTCAACACTTGTTGAAACATTCGATAA
AAGAGAGCAACTATCGGCTGTTAGATTGTTTATACAATTAAAGCAAGGTGATGAACCTGG
AACTTTCCCATTTGGCATGATGACAAACTTTCCACGTAAAGTTTTCACTGAAGAAGACTA
TGAAAAAAGCTTAGATGAACTAAAACTTGTTCCATCAGCAGTTATTATTGTCACAAAGAC
TGCATAA

>g4493.t15 Gene=g4493 Length=158
MSEARRKLEEEEMKKIVEQRKREKQEEKIARERVKAQIEADKAARRAKAAGQPPSISEPV
QVPVQTPQVTPPPKDYKETKIQIRLPNGSTLVETFDKREQLSAVRLFIQLKQGDEPGTFP
FGMMTNFPRKVFTEEDYEKSLDELKLVPSAVIIVTKTA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g4493.t15 Coils Coil Coil 1 37 -
4 g4493.t15 Gene3D G3DSA:3.10.20.90 - 72 156 8.6E-26
7 g4493.t15 MobiDBLite mobidb-lite consensus disorder prediction 37 77 -
2 g4493.t15 PANTHER PTHR46340 UBX DOMAIN-CONTAINING PROTEIN 1 1 156 5.7E-45
1 g4493.t15 Pfam PF00789 UBX domain 74 155 8.2E-23
8 g4493.t15 ProSiteProfiles PS50033 UBX domain profile. 74 154 22.756
6 g4493.t15 SMART SM00166 ubx_3 71 156 5.2E-23
3 g4493.t15 SUPERFAMILY SSF54236 Ubiquitin-like 23 156 1.27E-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:0005515 protein binding 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