Gene loci information

Transcript annotation

  • This transcript has been annotated as ADP-ribosylation factor 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 g7303 g7303.t42 TTS g7303.t42 22847929 22847929
chr_2 g7303 g7303.t42 isoform g7303.t42 22848080 22849752
chr_2 g7303 g7303.t42 exon g7303.t42.exon1 22848080 22848182
chr_2 g7303 g7303.t42 cds g7303.t42.CDS1 22848080 22848182
chr_2 g7303 g7303.t42 exon g7303.t42.exon2 22848249 22848310
chr_2 g7303 g7303.t42 cds g7303.t42.CDS2 22848249 22848310
chr_2 g7303 g7303.t42 exon g7303.t42.exon3 22848386 22848511
chr_2 g7303 g7303.t42 cds g7303.t42.CDS3 22848386 22848511
chr_2 g7303 g7303.t42 exon g7303.t42.exon4 22848617 22848675
chr_2 g7303 g7303.t42 cds g7303.t42.CDS4 22848617 22848675
chr_2 g7303 g7303.t42 exon g7303.t42.exon5 22848744 22848824
chr_2 g7303 g7303.t42 cds g7303.t42.CDS5 22848744 22848824
chr_2 g7303 g7303.t42 exon g7303.t42.exon6 22849003 22849284
chr_2 g7303 g7303.t42 cds g7303.t42.CDS6 22849003 22849009
chr_2 g7303 g7303.t42 exon g7303.t42.exon7 22849729 22849752
chr_2 g7303 g7303.t42 TSS g7303.t42 22849846 22849846

Sequences

>g7303.t42 Gene=g7303 Length=737
ACTGAAGTTAAGCATCAAGCGTAGATAAAGCTATATCGTCGCTAAACACAAGAAAAACTA
TAATTTAGAAAGGAAACTGCGAGTGCAAGAGGAGAAAAAAAGAAGATTGTGTGTGACCTG
TGAAATTATATACATTCGAAAAGAAGACTTAATAAATAAAGATGGGAAACGTATTTGCTA
ATCTGTTCAAAGGTTTATTTGGTAAAAAGGAGATGAGAATATTGGTGAGTTGTACACATT
TTTAATAACTATTTCACAATTTGCATTTTTACATAATTTTTGACATTTATTCACTGTAGA
TGGTTGGTGAAATTGTAACTACAATCCCAACCATTGGCTTCAACGTTGAAACTGTAGAAT
ACAAAAATATTTCATTTACTGTTTGGGATGTTGGTGGTCAAGACAAAATCCGCCCACTCT
GGAGACATTATTTCCAAAATACCCAAGGGCTTATCTTTGTCGTTGATAGTAATGACCGTG
AGCGTGTTGGTGAAGCTCGTGAAGAATTAATGAGAATGTTGGCTGAAGATGAATTGAGGG
ATGCTGTGCTTTTAATTTTTGCCAACAAGCAGGATTTGCCCAATGCTATGAATGCAGCCG
AAATCACAGATAAATTAGGTCTTCACTCATTACGAAACCGAAGCTGGTATATTCAAGCAA
CGTGTGCAACCAGTGGAGATGGCCTCTATGAAGGTTTGGATTGGCTTTCGAATCAACTGA
AGAACGCTAACCGCTAA

>g7303.t42 Gene=g7303 Length=145
MVGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR
ERVGEAREELMRMLAEDELRDAVLLIFANKQDLPNAMNAAEITDKLGLHSLRNRSWYIQA
TCATSGDGLYEGLDWLSNQLKNANR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g7303.t42 CDD cd04150 Arf1_5_like 1 139 0.0000
8 g7303.t42 Gene3D G3DSA:3.40.50.300 - 2 140 0.0000
2 g7303.t42 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 2 142 0.0000
3 g7303.t42 PANTHER PTHR11711:SF388 ADP-RIBOSYLATION FACTOR 2-LIKE 2 142 0.0000
6 g7303.t42 PRINTS PR00328 GTP-binding SAR1 protein signature 10 34 0.0000
4 g7303.t42 PRINTS PR00328 GTP-binding SAR1 protein signature 37 62 0.0000
5 g7303.t42 PRINTS PR00328 GTP-binding SAR1 protein signature 82 103 0.0000
1 g7303.t42 Pfam PF00025 ADP-ribosylation factor family 3 139 0.0000
13 g7303.t42 ProSiteProfiles PS51417 small GTPase Arf family profile. 1 140 20.2120
10 g7303.t42 SMART SM00177 arf_sub_2 1 144 0.0000
11 g7303.t42 SMART SM00178 sar_sub_1 1 140 0.0004
7 g7303.t42 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 4 143 0.0000
12 g7303.t42 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 6 122 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

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