Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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.t12 TTS g4493.t12 2885280 2885280
chr_2 g4493 g4493.t12 isoform g4493.t12 2885341 2886452
chr_2 g4493 g4493.t12 exon g4493.t12.exon1 2885341 2885765
chr_2 g4493 g4493.t12 cds g4493.t12.CDS1 2885726 2885765
chr_2 g4493 g4493.t12 exon g4493.t12.exon2 2885850 2886326
chr_2 g4493 g4493.t12 cds g4493.t12.CDS2 2885850 2886326
chr_2 g4493 g4493.t12 exon g4493.t12.exon3 2886403 2886452
chr_2 g4493 g4493.t12 cds g4493.t12.CDS3 2886403 2886452
chr_2 g4493 g4493.t12 TSS g4493.t12 2886450 2886450

Sequences

>g4493.t12 Gene=g4493 Length=952
ATGAGTGGCATTGAACAATTGGTCGAAATGGGTTTTCCAAGAGATAGAGCAGAAAAGGCA
TTAAGTTGCAATAATAATAATGTAGAACAAGCAATGGAATGGTTGTTAGTTCATAGTGAG
GATGATATGTCAAATGTTAATCCTCCAAATGAACCTAAGCCATTGGAAATAAAAAATGAT
GAGTCATCAAATGAACCTGCAGCAAATGCTACCACAAGTGAATCTGATCAAGCAATACCG
CAAGAAGCAAAGAGTATTAAGTGTGAAGACTGTGGTAAACTCTTCAAAACTACAATCGAA
ATAGAATTTCATGCAGCAAAATCTGGACATAGCAATTTCTCAGAATCTACAGAAGAGAAG
AAACCATTGACAGAAGAGGAGAAGAAAGCTCAATTAGCACAACTAGAAGAAAGAATAAAG
GCTAAACGTTTGGAACGAGAAGAACGTGAAAAACAAGAAGCATTAGAAAAGGAGCGGTTA
AGAATTAAGAGTGGTAAAGATATGAGTGAAGCTCGACGCAAATTGGAAACAAAGAAAACG
AGAAAAACAAGAAGAGAAAATTGCTAGAGAACGAGTTAAGGCTCAAATTGAAGCAGATAA
GGCAGCACGAAGAGCAAAAGCAGCAGGTCAACCACCGTCAATATCAGAGCCAGTACAAGT
ACCAGTTCAAACACCACAAGTTACACCTCCACCAAAAGATTACAAAGAAACAAAAATACA
GATTCGTTTGCCCAATGGTTCAACACTTGTTGAAACATTCGATAAAAGAGAGCAACTATC
GGCTGTTAGATTGTTTATACAATTAAAGCAAGGTGATGAACCTGGAACTTTCCCATTTGG
CATGATGACAAACTTTCCACGTAAAGTTTTCACTGAAGAAGACTATGAAAAAAGCTTAGA
TGAACTAAAACTTGTTCCATCAGCAGTTATTATTGTCACAAAGACTGCATAA

>g4493.t12 Gene=g4493 Length=188
MSGIEQLVEMGFPRDRAEKALSCNNNNVEQAMEWLLVHSEDDMSNVNPPNEPKPLEIKND
ESSNEPAANATTSESDQAIPQEAKSIKCEDCGKLFKTTIEIEFHAAKSGHSNFSESTEEK
KPLTEEEKKAQLAQLEERIKAKRLEREEREKQEALEKERLRIKSGKDMSEARRKLETKKT
RKTRRENC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g4493.t12 CDD cd14302 UBA_UBXN1 2 41 4.76415E-16
5 g4493.t12 Coils Coil Coil 125 161 -
4 g4493.t12 Gene3D G3DSA:1.10.8.10 DNA helicase RuvA subunit 2 41 4.5E-17
10 g4493.t12 MobiDBLite mobidb-lite consensus disorder prediction 39 83 -
13 g4493.t12 MobiDBLite mobidb-lite consensus disorder prediction 62 80 -
12 g4493.t12 MobiDBLite mobidb-lite consensus disorder prediction 105 130 -
11 g4493.t12 MobiDBLite mobidb-lite consensus disorder prediction 113 130 -
9 g4493.t12 MobiDBLite mobidb-lite consensus disorder prediction 144 188 -
2 g4493.t12 PANTHER PTHR46340 UBX DOMAIN-CONTAINING PROTEIN 1 1 183 2.0E-57
1 g4493.t12 Pfam PF00627 UBA/TS-N domain 4 35 1.1E-12
8 g4493.t12 ProSitePatterns PS00028 Zinc finger C2H2 type domain signature. 88 110 -
14 g4493.t12 ProSiteProfiles PS50030 Ubiquitin-associated domain (UBA) profile. 1 38 15.005
15 g4493.t12 ProSiteProfiles PS50157 Zinc finger C2H2 type domain profile. 86 115 8.663
7 g4493.t12 SMART SM00165 uba_6 4 37 3.7E-8
3 g4493.t12 SUPERFAMILY SSF46934 UBA-like 4 42 8.7E-15

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