Gene loci information

Transcript annotation

  • This transcript has been annotated as ADP-ribosylation factor 2.

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 g14776 g14776.t4 TSS g14776.t4 2272211 2272211
chr_4 g14776 g14776.t4 isoform g14776.t4 2272368 2273487
chr_4 g14776 g14776.t4 exon g14776.t4.exon1 2272368 2272374
chr_4 g14776 g14776.t4 exon g14776.t4.exon2 2272648 2272725
chr_4 g14776 g14776.t4 cds g14776.t4.CDS1 2272659 2272725
chr_4 g14776 g14776.t4 exon g14776.t4.exon3 2273099 2273487
chr_4 g14776 g14776.t4 cds g14776.t4.CDS2 2273099 2273487
chr_4 g14776 g14776.t4 TTS g14776.t4 NA NA

Sequences

>g14776.t4 Gene=g14776 Length=474
AATTAAGTGCATTCAAAAATGGGTCTCACAATTTCAAGTGTCTTCAATCGACTTTTTGGA
AAAAAGCAGATGAGGATTTTAATGGTCGGTCTCGATGCAGCTGGTAAAACCACAATTCTC
TACAAATTAAAACTCGGTGAAATTGTCACAACCATTCCAACAATTGGTTTCAATGTCGAG
ACAGTAGAATACAAAAACATTTGTTTCACAGTGTGGGATGTTGGTGGTCAAGATAAAATT
CGTCCACTTTGGCGTCATTATTTCCAAAACACTCAAGGTCTCATTTTTGTCGTTGATTCA
AATGATCGTGAGCGTGTTGTTGAAGCTGAAAGGGAACTTCATAATATGTTGAATGAAGAT
GAACTTCGTGATGCAGTGATTTTGGTATTTGCAAACAAACAAGATTTGCCAAATGCAATG
AGCGCATCGGAATTGACTGAAAAATTAAGGTTGAATTCACTGCATAATAGAAGT

>g14776.t4 Gene=g14776 Length=152
MGLTISSVFNRLFGKKQMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKN
ICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVVEAERELHNMLNEDELRDAV
ILVFANKQDLPNAMSASELTEKLRLNSLHNRS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g14776.t4 CDD cd04150 Arf1_5_like 18 152 0.000
9 g14776.t4 Gene3D G3DSA:3.40.50.300 - 18 152 0.000
2 g14776.t4 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 1 151 0.000
3 g14776.t4 PANTHER PTHR11711:SF386 ADP-RIBOSYLATION FACTOR 5 1 151 0.000
4 g14776.t4 PRINTS PR00328 GTP-binding SAR1 protein signature 19 42 0.000
7 g14776.t4 PRINTS PR00328 GTP-binding SAR1 protein signature 47 71 0.000
5 g14776.t4 PRINTS PR00328 GTP-binding SAR1 protein signature 74 99 0.000
6 g14776.t4 PRINTS PR00328 GTP-binding SAR1 protein signature 119 140 0.000
1 g14776.t4 Pfam PF00025 ADP-ribosylation factor family 6 150 0.000
15 g14776.t4 ProSiteProfiles PS51417 small GTPase Arf family profile. 11 152 20.220
11 g14776.t4 SMART SM00177 arf_sub_2 1 152 0.000
13 g14776.t4 SMART SM00178 sar_sub_1 1 152 0.000
12 g14776.t4 SMART SM00175 rab_sub_5 18 151 0.009
8 g14776.t4 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 14 141 0.000
14 g14776.t4 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 16 146 0.000

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:0005525 GTP 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.

Raw TPM values