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.t1 TSS g14776.t1 2272211 2272211
chr_4 g14776 g14776.t1 isoform g14776.t1 2272659 2274660
chr_4 g14776 g14776.t1 exon g14776.t1.exon1 2272659 2272725
chr_4 g14776 g14776.t1 cds g14776.t1.CDS1 2272659 2272725
chr_4 g14776 g14776.t1 exon g14776.t1.exon2 2273099 2273487
chr_4 g14776 g14776.t1 cds g14776.t1.CDS2 2273099 2273487
chr_4 g14776 g14776.t1 exon g14776.t1.exon3 2274574 2274660
chr_4 g14776 g14776.t1 cds g14776.t1.CDS3 2274574 2274660
chr_4 g14776 g14776.t1 TTS g14776.t1 2275004 2275004

Sequences

>g14776.t1 Gene=g14776 Length=543
ATGGGTCTCACAATTTCAAGTGTCTTCAATCGACTTTTTGGAAAAAAGCAGATGAGGATT
TTAATGGTCGGTCTCGATGCAGCTGGTAAAACCACAATTCTCTACAAATTAAAACTCGGT
GAAATTGTCACAACCATTCCAACAATTGGTTTCAATGTCGAGACAGTAGAATACAAAAAC
ATTTGTTTCACAGTGTGGGATGTTGGTGGTCAAGATAAAATTCGTCCACTTTGGCGTCAT
TATTTCCAAAACACTCAAGGTCTCATTTTTGTCGTTGATTCAAATGATCGTGAGCGTGTT
GTTGAAGCTGAAAGGGAACTTCATAATATGTTGAATGAAGATGAACTTCGTGATGCAGTG
ATTTTGGTATTTGCAAACAAACAAGATTTGCCAAATGCAATGAGCGCATCGGAATTGACT
GAAAAATTAAGGTTGAATTCACTGCATAATAGAAGTTGGTATATTCAGGCAACATGTGCA
ACACAAGGAAATGGTCTCTATGAAGGACTCGATTGGCTGTCAAAGGAACTTGAAAAGAAA
TAA

>g14776.t1 Gene=g14776 Length=180
MGLTISSVFNRLFGKKQMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKN
ICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVVEAERELHNMLNEDELRDAV
ILVFANKQDLPNAMSASELTEKLRLNSLHNRSWYIQATCATQGNGLYEGLDWLSKELEKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g14776.t1 CDD cd04150 Arf1_5_like 18 176 0.0000
9 g14776.t1 Gene3D G3DSA:3.40.50.300 - 18 177 0.0000
2 g14776.t1 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 1 180 0.0000
3 g14776.t1 PANTHER PTHR11711:SF386 ADP-RIBOSYLATION FACTOR 5 1 180 0.0000
4 g14776.t1 PRINTS PR00328 GTP-binding SAR1 protein signature 19 42 0.0000
7 g14776.t1 PRINTS PR00328 GTP-binding SAR1 protein signature 47 71 0.0000
5 g14776.t1 PRINTS PR00328 GTP-binding SAR1 protein signature 74 99 0.0000
6 g14776.t1 PRINTS PR00328 GTP-binding SAR1 protein signature 119 140 0.0000
1 g14776.t1 Pfam PF00025 ADP-ribosylation factor family 6 176 0.0000
15 g14776.t1 ProSiteProfiles PS51417 small GTPase Arf family profile. 11 177 24.7550
11 g14776.t1 SMART SM00177 arf_sub_2 1 180 0.0000
13 g14776.t1 SMART SM00178 sar_sub_1 1 177 0.0000
12 g14776.t1 SMART SM00175 rab_sub_5 18 180 0.0032
8 g14776.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 14 177 0.0000
14 g14776.t1 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 16 146 0.0000

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

Pathway

  • This transcript belongs to the following pathways

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