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.t15 isoform g7303.t15 22847770 22849752
chr_2 g7303 g7303.t15 exon g7303.t15.exon1 22847770 22848182
chr_2 g7303 g7303.t15 cds g7303.t15.CDS1 22848080 22848182
chr_2 g7303 g7303.t15 exon g7303.t15.exon2 22848249 22848310
chr_2 g7303 g7303.t15 cds g7303.t15.CDS2 22848249 22848310
chr_2 g7303 g7303.t15 exon g7303.t15.exon3 22848386 22848511
chr_2 g7303 g7303.t15 cds g7303.t15.CDS3 22848386 22848511
chr_2 g7303 g7303.t15 exon g7303.t15.exon4 22848617 22848675
chr_2 g7303 g7303.t15 cds g7303.t15.CDS4 22848617 22848675
chr_2 g7303 g7303.t15 exon g7303.t15.exon5 22848744 22848824
chr_2 g7303 g7303.t15 cds g7303.t15.CDS5 22848744 22848824
chr_2 g7303 g7303.t15 exon g7303.t15.exon6 22848955 22849009
chr_2 g7303 g7303.t15 cds g7303.t15.CDS6 22848955 22849009
chr_2 g7303 g7303.t15 exon g7303.t15.exon7 22849078 22849284
chr_2 g7303 g7303.t15 exon g7303.t15.exon8 22849729 22849752
chr_2 g7303 g7303.t15 TSS g7303.t15 22849846 22849846
chr_2 g7303 g7303.t15 TTS g7303.t15 NA NA

Sequences

>g7303.t15 Gene=g7303 Length=1027
ACTGAAGTTAAGCATCAAGCGTAGATAAAGCTATATCGTCGCTAAACACAAGAAAAACTA
TAATTTAGAAAGGAAACTGCGAGTGCAAGAGGAGAAAAAAAGAAGATTGTGTGTGACCTG
TGAAATTATATACATTCGAAAAGAAGACTTAATAAATAAAGATGGGAAACGTATTTGCTA
ATCTGTTCAAAGGTTTATTTGGTAAAAAGGAGATGAGAATATTGGTGAGTTATGGTTGGT
CTCGATGCTGCTGGTAAAACGACAATTTTATACAAGCTTAAATTAGGTGAAATTGTAACT
ACAATCCCAACCATTGGCTTCAACGTTGAAACTGTAGAATACAAAAATATTTCATTTACT
GTTTGGGATGTTGGTGGTCAAGACAAAATCCGCCCACTCTGGAGACATTATTTCCAAAAT
ACCCAAGGGCTTATCTTTGTCGTTGATAGTAATGACCGTGAGCGTGTTGGTGAAGCTCGT
GAAGAATTAATGAGAATGTTGGCTGAAGATGAATTGAGGGATGCTGTGCTTTTAATTTTT
GCCAACAAGCAGGATTTGCCCAATGCTATGAATGCAGCCGAAATCACAGATAAATTAGGT
CTTCACTCATTACGAAACCGAAGCTGGTATATTCAAGCAACGTGTGCAACCAGTGGAGAT
GGCCTCTATGAAGGTTTGGATTGGCTTTCGAATCAACTGAAGAACGCTAACCGCTAAGAA
TCCGAATATAAATGAAGAAATAATATGAAAGTATTGATCTACCAACCATCAAAAAAACTT
ACATTTAATTATTTTCAAGCAAAAAAATGAGAGAAAAAGATAAAGAGAAATTGATTAAAT
AAATTCACAATATTCGGGATATTGAAACAAAAAAAAATAAAACAAGCAGAAAATTTAATG
ATATAAAAAACACACAGATTAAGGCATAAAAATCATTGCAAGAGGAAACAAAAAACACAC
TTTTAAATGAGAAAAAAATAATGAAAAAACATTGCTGTCGTTAAGAAATATAAATAAAAA
AGGCACT

>g7303.t15 Gene=g7303 Length=161
MVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHY
FQNTQGLIFVVDSNDRERVGEAREELMRMLAEDELRDAVLLIFANKQDLPNAMNAAEITD
KLGLHSLRNRSWYIQATCATSGDGLYEGLDWLSNQLKNANR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g7303.t15 CDD cd04150 Arf1_5_like 1 155 0.000
8 g7303.t15 Gene3D G3DSA:3.40.50.300 - 1 156 0.000
2 g7303.t15 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 1 158 0.000
3 g7303.t15 PANTHER PTHR11711:SF388 ADP-RIBOSYLATION FACTOR 2-LIKE 1 158 0.000
5 g7303.t15 PRINTS PR00328 GTP-binding SAR1 protein signature 26 50 0.000
6 g7303.t15 PRINTS PR00328 GTP-binding SAR1 protein signature 53 78 0.000
4 g7303.t15 PRINTS PR00328 GTP-binding SAR1 protein signature 98 119 0.000
1 g7303.t15 Pfam PF00025 ADP-ribosylation factor family 1 155 0.000
13 g7303.t15 ProSiteProfiles PS51417 small GTPase Arf family profile. 1 156 23.733
10 g7303.t15 SMART SM00177 arf_sub_2 1 160 0.000
11 g7303.t15 SMART SM00178 sar_sub_1 1 156 0.000
7 g7303.t15 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 159 0.000
12 g7303.t15 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 1 138 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