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.t52 TTS g7303.t52 22847929 22847929
chr_2 g7303 g7303.t52 isoform g7303.t52 22848080 22849864
chr_2 g7303 g7303.t52 exon g7303.t52.exon1 22848080 22848182
chr_2 g7303 g7303.t52 cds g7303.t52.CDS1 22848080 22848182
chr_2 g7303 g7303.t52 exon g7303.t52.exon2 22848249 22848310
chr_2 g7303 g7303.t52 cds g7303.t52.CDS2 22848249 22848310
chr_2 g7303 g7303.t52 exon g7303.t52.exon3 22848386 22848511
chr_2 g7303 g7303.t52 cds g7303.t52.CDS3 22848386 22848511
chr_2 g7303 g7303.t52 exon g7303.t52.exon4 22848617 22848675
chr_2 g7303 g7303.t52 cds g7303.t52.CDS4 22848617 22848675
chr_2 g7303 g7303.t52 exon g7303.t52.exon5 22848744 22848824
chr_2 g7303 g7303.t52 cds g7303.t52.CDS5 22848744 22848824
chr_2 g7303 g7303.t52 exon g7303.t52.exon6 22848955 22849009
chr_2 g7303 g7303.t52 cds g7303.t52.CDS6 22848955 22849009
chr_2 g7303 g7303.t52 exon g7303.t52.exon7 22849085 22849278
chr_2 g7303 g7303.t52 cds g7303.t52.CDS7 22849085 22849147
chr_2 g7303 g7303.t52 exon g7303.t52.exon8 22849729 22849864
chr_2 g7303 g7303.t52 TSS g7303.t52 22849846 22849846

Sequences

>g7303.t52 Gene=g7303 Length=816
AGTTCAAGTTGAACGTTGAACTGAAATTCTCCGCTTTCGTTCTCAAAAAATAATTTTTAA
GTGAGGATTAGATAAATTATTTCGATATTTAAGGCATCAGGACATTTAGAAAACTGAAGT
TAAGCATCAAGCGTAGCTATATCGTCGCTAAACACAAGAAAAACTATAATTTAGAAAGGA
AACTGCGAGTGCAAGAGGAGAAAAAAAGAAGATTGTGTGTGACCTGTGAAATTATATACA
TTCGAAAAGAAGACTTAATAAATAAAGATGGGAAACGTATTTGCTAATCTGTTCAAAGGT
TTATTTGGTAAAAAGGAGATGAGAATATTGATGGTTGGTCTCGATGCTGCTGGTAAAACG
ACAATTTTATACAAGCTTAAATTAGGTGAAATTGTAACTACAATCCCAACCATTGGCTTC
AACGTTGAAACTGTAGAATACAAAAATATTTCATTTACTGTTTGGGATGTTGGTGGTCAA
GACAAAATCCGCCCACTCTGGAGACATTATTTCCAAAATACCCAAGGGCTTATCTTTGTC
GTTGATAGTAATGACCGTGAGCGTGTTGGTGAAGCTCGTGAAGAATTAATGAGAATGTTG
GCTGAAGATGAATTGAGGGATGCTGTGCTTTTAATTTTTGCCAACAAGCAGGATTTGCCC
AATGCTATGAATGCAGCCGAAATCACAGATAAATTAGGTCTTCACTCATTACGAAACCGA
AGCTGGTATATTCAAGCAACGTGTGCAACCAGTGGAGATGGCCTCTATGAAGGTTTGGAT
TGGCTTTCGAATCAACTGAAGAACGCTAACCGCTAA

>g7303.t52 Gene=g7303 Length=182
MGNVFANLFKGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKN
ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVGEAREELMRMLAEDELRDAV
LLIFANKQDLPNAMNAAEITDKLGLHSLRNRSWYIQATCATSGDGLYEGLDWLSNQLKNA
NR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g7303.t52 CDD cd04150 Arf1_5_like 18 176 0.0000
9 g7303.t52 Gene3D G3DSA:3.40.50.300 - 18 177 0.0000
2 g7303.t52 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 1 180 0.0000
3 g7303.t52 PANTHER PTHR11711:SF357 ADP-RIBOSYLATION FACTOR 1 1 180 0.0000
4 g7303.t52 PRINTS PR00328 GTP-binding SAR1 protein signature 19 42 0.0000
7 g7303.t52 PRINTS PR00328 GTP-binding SAR1 protein signature 47 71 0.0000
5 g7303.t52 PRINTS PR00328 GTP-binding SAR1 protein signature 74 99 0.0000
6 g7303.t52 PRINTS PR00328 GTP-binding SAR1 protein signature 119 140 0.0000
1 g7303.t52 Pfam PF00025 ADP-ribosylation factor family 7 176 0.0000
15 g7303.t52 ProSiteProfiles PS51417 small GTPase Arf family profile. 11 177 25.3130
11 g7303.t52 SMART SM00177 arf_sub_2 1 181 0.0000
13 g7303.t52 SMART SM00178 sar_sub_1 1 177 0.0000
12 g7303.t52 SMART SM00175 rab_sub_5 18 180 0.0042
8 g7303.t52 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 14 180 0.0000
14 g7303.t52 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 16 158 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