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.t58 TTS g7303.t58 22847929 22847929
chr_2 g7303 g7303.t58 isoform g7303.t58 22848080 22849864
chr_2 g7303 g7303.t58 exon g7303.t58.exon1 22848080 22848182
chr_2 g7303 g7303.t58 cds g7303.t58.CDS1 22848080 22848182
chr_2 g7303 g7303.t58 exon g7303.t58.exon2 22848249 22848310
chr_2 g7303 g7303.t58 cds g7303.t58.CDS2 22848249 22848310
chr_2 g7303 g7303.t58 exon g7303.t58.exon3 22848386 22848511
chr_2 g7303 g7303.t58 cds g7303.t58.CDS3 22848386 22848511
chr_2 g7303 g7303.t58 exon g7303.t58.exon4 22848617 22848675
chr_2 g7303 g7303.t58 cds g7303.t58.CDS4 22848617 22848675
chr_2 g7303 g7303.t58 exon g7303.t58.exon5 22848744 22848851
chr_2 g7303 g7303.t58 cds g7303.t58.CDS5 22848744 22848851
chr_2 g7303 g7303.t58 exon g7303.t58.exon6 22849078 22849284
chr_2 g7303 g7303.t58 cds g7303.t58.CDS6 22849078 22849147
chr_2 g7303 g7303.t58 exon g7303.t58.exon7 22849729 22849864
chr_2 g7303 g7303.t58 TSS g7303.t58 22850791 22850791

Sequences

>g7303.t58 Gene=g7303 Length=801
AGTTCAAGTTGAACGTTGAACTGAAATTCTCCGCTTTCGTTCTCAAAAAATAATTTTTAA
GTGAGGATTAGATAAATTATTTCGATATTTAAGGCATCAGGACATTTAGAAAACTGAAGT
TAAGCATCAAGCGTAGATAAAGCTATATCGTCGCTAAACACAAGAAAAACTATAATTTAG
AAAGGAAACTGCGAGTGCAAGAGGAGAAAAAAAGAAGATTGTGTGTGACCTGTGAAATTA
TATACATTCGAAAAGAAGACTTAATAAATAAAGATGGGAAACGTATTTGCTAATCTGTTC
AAAGGTTTATTTGGTAAAAAGGAGATGAGAATATTGGTGAGTTCTAAACTCTCTTCTTTC
TCTCTTCTAGGTGAAATTGTAACTACAATCCCAACCATTGGCTTCAACGTTGAAACTGTA
GAATACAAAAATATTTCATTTACTGTTTGGGATGTTGGTGGTCAAGACAAAATCCGCCCA
CTCTGGAGACATTATTTCCAAAATACCCAAGGGCTTATCTTTGTCGTTGATAGTAATGAC
CGTGAGCGTGTTGGTGAAGCTCGTGAAGAATTAATGAGAATGTTGGCTGAAGATGAATTG
AGGGATGCTGTGCTTTTAATTTTTGCCAACAAGCAGGATTTGCCCAATGCTATGAATGCA
GCCGAAATCACAGATAAATTAGGTCTTCACTCATTACGAAACCGAAGCTGGTATATTCAA
GCAACGTGTGCAACCAGTGGAGATGGCCTCTATGAAGGTTTGGATTGGCTTTCGAATCAA
CTGAAGAACGCTAACCGCTAA

>g7303.t58 Gene=g7303 Length=175
MGNVFANLFKGLFGKKEMRILVSSKLSSFSLLGEIVTTIPTIGFNVETVEYKNISFTVWD
VGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVGEAREELMRMLAEDELRDAVLLIFANK
QDLPNAMNAAEITDKLGLHSLRNRSWYIQATCATSGDGLYEGLDWLSNQLKNANR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g7303.t58 CDD cd04150 Arf1_5_like 33 169 0.000
8 g7303.t58 Gene3D G3DSA:3.40.50.300 - 21 170 0.000
2 g7303.t58 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 1 172 0.000
3 g7303.t58 PANTHER PTHR11711:SF340 ADP-RIBOSYLATION FACTOR A1F 1 172 0.000
5 g7303.t58 PRINTS PR00328 GTP-binding SAR1 protein signature 40 64 0.000
4 g7303.t58 PRINTS PR00328 GTP-binding SAR1 protein signature 67 92 0.000
6 g7303.t58 PRINTS PR00328 GTP-binding SAR1 protein signature 112 133 0.000
1 g7303.t58 Pfam PF00025 ADP-ribosylation factor family 32 169 0.000
13 g7303.t58 ProSiteProfiles PS51417 small GTPase Arf family profile. 1 170 20.917
10 g7303.t58 SMART SM00177 arf_sub_2 1 174 0.000
11 g7303.t58 SMART SM00178 sar_sub_1 1 170 0.000
7 g7303.t58 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 32 173 0.000
12 g7303.t58 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 35 152 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