Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t47 TTS g7303.t47 22847929 22847929
chr_2 g7303 g7303.t47 isoform g7303.t47 22848080 22849766
chr_2 g7303 g7303.t47 exon g7303.t47.exon1 22848080 22848182
chr_2 g7303 g7303.t47 exon g7303.t47.exon2 22848249 22848310
chr_2 g7303 g7303.t47 exon g7303.t47.exon3 22848386 22848511
chr_2 g7303 g7303.t47 cds g7303.t47.CDS1 22848448 22848511
chr_2 g7303 g7303.t47 exon g7303.t47.exon4 22848617 22848675
chr_2 g7303 g7303.t47 cds g7303.t47.CDS2 22848617 22848675
chr_2 g7303 g7303.t47 exon g7303.t47.exon5 22848751 22848824
chr_2 g7303 g7303.t47 cds g7303.t47.CDS3 22848751 22848824
chr_2 g7303 g7303.t47 exon g7303.t47.exon6 22848955 22849009
chr_2 g7303 g7303.t47 cds g7303.t47.CDS4 22848955 22849009
chr_2 g7303 g7303.t47 exon g7303.t47.exon7 22849085 22849284
chr_2 g7303 g7303.t47 cds g7303.t47.CDS5 22849085 22849147
chr_2 g7303 g7303.t47 exon g7303.t47.exon8 22849729 22849766
chr_2 g7303 g7303.t47 TSS g7303.t47 22850791 22850791

Sequences

>g7303.t47 Gene=g7303 Length=717
AGGACATTTAGAAAACTGAAGTTAAGCATCAAGCGTAGATAAAGCTATATCGTCGCTAAA
CACAAGAAAAACTATAATTTAGAAAGGAAACTGCGAGTGCAAGAGGAGAAAAAAAGAAGA
TTGTGTGTGACCTGTGAAATTATATACATTCGAAAAGAAGACTTAATAAATAAAGATGGG
AAACGTATTTGCTAATCTGTTCAAAGGTTTATTTGGTAAAAAGGAGATGAGAATATTGAT
GGTTGGTCTCGATGCTGCTGGTAAAACGACAATTTTATACAAGCTTAAATTAGGTGAAAT
TGTAACTACAATCCCAACCATTGGCTTCAACGTTGAAACTGTAGAATACAAAAATATTTC
ATTTACTATGTTGGTGGTCAAGACAAAATCCGCCCACTCTGGAGACATTATTTCCAAAAT
ACCCAAGGGCTTATCTTTGTCGTTGATAGTAATGACCGTGAGCGTGTTGGTGAAGCTCGT
GAAGAATTAATGAGAATGTTGGCTGAAGATGAATTGAGGGATGCTGTGCTTTTAATTTTT
GCCAACAAGCAGGATTTGCCCAATGCTATGAATGCAGCCGAAATCACAGATAAATTAGGT
CTTCACTCATTACGAAACCGAAGCTGGTATATTCAAGCAACGTGTGCAACCAGTGGAGAT
GGCCTCTATGAAGGTTTGGATTGGCTTTCGAATCAACTGAAGAACGCTAACCGCTAA

>g7303.t47 Gene=g7303 Length=104
MGNVFANLFKGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKN
ISFTMLVVKTKSAHSGDIISKIPKGLSLSLIVMTVSVLVKLVKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g7303.t47 Gene3D G3DSA:3.40.50.300 - 1 95 5.3E-19
2 g7303.t47 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 1 69 6.2E-38
3 g7303.t47 PANTHER PTHR11711:SF357 ADP-RIBOSYLATION FACTOR 1 1 69 6.2E-38
1 g7303.t47 Pfam PF00025 ADP-ribosylation factor family 6 66 3.3E-23
7 g7303.t47 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 84 -
9 g7303.t47 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 85 102 -
8 g7303.t47 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 103 104 -
5 g7303.t47 SMART SM00177 arf_sub_2 1 101 5.6E-6
4 g7303.t47 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 13 65 4.76E-16

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