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.t5 TSS g14776.t5 2272211 2272211
chr_4 g14776 g14776.t5 isoform g14776.t5 2272368 2275070
chr_4 g14776 g14776.t5 exon g14776.t5.exon1 2272368 2272374
chr_4 g14776 g14776.t5 exon g14776.t5.exon2 2272648 2272725
chr_4 g14776 g14776.t5 cds g14776.t5.CDS1 2272659 2272725
chr_4 g14776 g14776.t5 exon g14776.t5.exon3 2273099 2273485
chr_4 g14776 g14776.t5 cds g14776.t5.CDS2 2273099 2273485
chr_4 g14776 g14776.t5 exon g14776.t5.exon4 2274574 2275070
chr_4 g14776 g14776.t5 cds g14776.t5.CDS3 2274574 2274620
chr_4 g14776 g14776.t5 TTS g14776.t5 2275004 2275004

Sequences

>g14776.t5 Gene=g14776 Length=969
AATTAAGTGCATTCAAAAATGGGTCTCACAATTTCAAGTGTCTTCAATCGACTTTTTGGA
AAAAAGCAGATGAGGATTTTAATGGTCGGTCTCGATGCAGCTGGTAAAACCACAATTCTC
TACAAATTAAAACTCGGTGAAATTGTCACAACCATTCCAACAATTGGTTTCAATGTCGAG
ACAGTAGAATACAAAAACATTTGTTTCACAGTGTGGGATGTTGGTGGTCAAGATAAAATT
CGTCCACTTTGGCGTCATTATTTCCAAAACACTCAAGGTCTCATTTTTGTCGTTGATTCA
AATGATCGTGAGCGTGTTGTTGAAGCTGAAAGGGAACTTCATAATATGTTGAATGAAGAT
GAACTTCGTGATGCAGTGATTTTGGTATTTGCAAACAAACAAGATTTGCCAAATGCAATG
AGCGCATCGGAATTGACTGAAAAATTAAGGTTGAATTCACTGCATAATAGAATGGTATAT
TCAGGCAACATGTGCAACACAAGGAAATGGTCTCTATGAAGGACTCGATTGGCTGTCAAA
GGAACTTGAAAAGAAATAAACAAAACAATAATCAAAAACACTAAAAATTACTTTAAATTA
AATTGAAATGAAGACAAGACCAGTCCATCACTACCTTTCCTAAATTTCTCTTTTTCCTAT
TCTGCTCAATTAAAAAAATCCATTTTGTTATATGAAAAATTACCAACTGAAATAATTGAA
TGTTTTCATTTCAAAACTGGCATTTTTTTCTTCATTAAATTTGTAATATGCTAAACATAG
TAAAATATTTTTTTGTTTAAATTATGTTATCAAAATCAACATTTTCATGCATGGCAATTT
TTCTTCTTATTAATTAAATATGATTATCTGTAATAAATTAAAAATTGAATAAAATGTGTA
AAAAAATTAAATTTTAAAATCTTTTTTTTATTACACATCAAAATTTTATTTTTCTATTCT
TATAAAATT

>g14776.t5 Gene=g14776 Length=166
MGLTISSVFNRLFGKKQMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKN
ICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVVEAERELHNMLNEDELRDAV
ILVFANKQDLPNAMSASELTEKLRLNSLHNRMVYSGNMCNTRKWSL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g14776.t5 CDD cd04150 Arf1_5_like 18 162 0.000
9 g14776.t5 Gene3D G3DSA:3.40.50.300 - 18 166 0.000
2 g14776.t5 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 1 162 0.000
3 g14776.t5 PANTHER PTHR11711:SF386 ADP-RIBOSYLATION FACTOR 5 1 162 0.000
4 g14776.t5 PRINTS PR00328 GTP-binding SAR1 protein signature 19 42 0.000
7 g14776.t5 PRINTS PR00328 GTP-binding SAR1 protein signature 47 71 0.000
5 g14776.t5 PRINTS PR00328 GTP-binding SAR1 protein signature 74 99 0.000
6 g14776.t5 PRINTS PR00328 GTP-binding SAR1 protein signature 119 140 0.000
1 g14776.t5 Pfam PF00025 ADP-ribosylation factor family 6 159 0.000
15 g14776.t5 ProSiteProfiles PS51417 small GTPase Arf family profile. 11 166 20.714
11 g14776.t5 SMART SM00177 arf_sub_2 1 165 0.000
13 g14776.t5 SMART SM00178 sar_sub_1 1 166 0.000
12 g14776.t5 SMART SM00175 rab_sub_5 18 151 0.009
8 g14776.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 14 149 0.000
14 g14776.t5 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