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.t11 TTS g7303.t11 22846712 22846712
chr_2 g7303 g7303.t11 isoform g7303.t11 22847183 22849147
chr_2 g7303 g7303.t11 exon g7303.t11.exon1 22847183 22848182
chr_2 g7303 g7303.t11 cds g7303.t11.CDS1 22848080 22848182
chr_2 g7303 g7303.t11 exon g7303.t11.exon2 22848249 22848310
chr_2 g7303 g7303.t11 cds g7303.t11.CDS2 22848249 22848310
chr_2 g7303 g7303.t11 exon g7303.t11.exon3 22848386 22848511
chr_2 g7303 g7303.t11 cds g7303.t11.CDS3 22848386 22848511
chr_2 g7303 g7303.t11 exon g7303.t11.exon4 22848617 22849147
chr_2 g7303 g7303.t11 cds g7303.t11.CDS4 22848617 22848721
chr_2 g7303 g7303.t11 TSS g7303.t11 22849846 22849846

Sequences

>g7303.t11 Gene=g7303 Length=1719
ATGGGAAACGTATTTGCTAATCTGTTCAAAGGTTTATTTGGTAAAAAGGAGATGAGAATA
TTGGTGAGTTGTACACATTTTTAATAACTATTTCACAATTTGCATTTTTACATAATTTTT
GACATTTATTCACTGTAGATGGTTGGTCTCGATGCTGCTGGTAAAACGACAATTTTATAC
AAGCTTAAATTAGGTAAGTTCATCATCAAAATATTCGAGTGTTCCACCTCAATGTTTATG
AGTTGGAGAAAATTTCATTGCCAGCAACAACAAACAAAAAAAAGTAACACAAAGAGCTAA
ACTCTCTTCTTTCTCTCTTCTAGGTGAAATTGTAACTACAATCCCAACCATTGGCTTCAA
CGTTGAAACTGTAGAATACAAAAATATTTCATTTACTGTTTGGGGTGAGTATAGTTTATT
TTTTAGATGAGCTATCAAGCATTTGTAATAATTTCTCTTTTTTCTTTTATAGATGTTGGT
GGTCAAGACAAAATCCGCCCACTCTGGAGACATTATTTCCAAAATACCCAAGGGCTTATC
TTTGTCGTTGATAGTAATGACCGTGAGCGTGTTGGTGAAGCTCGTGAAGAATTAATGAGA
ATGTTGGCTGAAGATGAATTGAGGGATGCTGTGCTTTTAATTTTTGCCAACAAGCAGGAT
TTGCCCAATGCTATGAATGCAGCCGAAATCACAGATAAATTAGGTCTTCACTCATTACGA
AACCGAAGCTGGTATATTCAAGCAACGTGTGCAACCAGTGGAGATGGCCTCTATGAAGGT
TTGGATTGGCTTTCGAATCAACTGAAGAACGCTAACCGCTAAGAATCCGAATATAAATGA
AGAAATAATATGAAAGTATTGATCTACCAACCATCAAAAAAACTTACATTTAATTATTTT
CAAGCAAAAAAATGAGAGAAAAAGATAAAGAGAAATTGATTAAATAAATTCACAATATTC
GGGATATTGAAACAAAAAAAAATAAAACAAGCAGAAAATTTAATGATATAAAAAACACAC
AGATTAAGGCATAAAAATCATTGCAAGAGGAAACAAAAAACACACTTTTAAATGAGAAAA
AAATAATGAAAAAACATTGCTGTCGTTAAGAAATATAAATAAAAAAGGCACTTCGGTGTT
CGATGATAAAATAAAATTTAAGTAAAAGAATAATATCCATACTATTATTTAAACGCAAGA
TGACGAAAGATGAATTAATTATAAAAATATATAAATTTACTTTTTTGAGCAAGCTGTATG
ATGAGGAAGACAATTTCATAGATCATTTTATCTTTTTTTCAAAATGAGTTTCTAACAAAA
TCATACACACTCAGCAAACACATACATTTACTATATTAAAAAAATTTATTTGCAAAAAAA
TAAGGAAATTGGAGGTTGAAAAGATGAAAATGCTTATAAAAAGATTGATAAAAAAATTAA
ATTAAAGTACAGACAAACACACATATATAATCTATTTGTTAAATTCATATTTCAATGGCA
TTATTATTGAGCAACAATAATCTGGGTCTTTTCATTAGGAGCTTCTTTCTTTTTTATTAT
TATTTTTTCTTTTTTTACATATTTTTATTTTTTGAAGAAACAATTAAATTAAGGAAGTTG
AAGAATGAACACTGATTTAAGGGAAAAATAATAATTGTGTAAAATGCTTTAGCTAAGTAA
ATCAAGTGAAATAATTATTTCAAGACGATGATTTTCATG

>g7303.t11 Gene=g7303 Length=131
MSYQAFVIISLFSFIDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVGEAREELMRML
AEDELRDAVLLIFANKQDLPNAMNAAEITDKLGLHSLRNRSWYIQATCATSGDGLYEGLD
WLSNQLKNANR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g7303.t11 Coils Coil Coil 119 131 -
7 g7303.t11 Gene3D G3DSA:3.40.50.300 - 7 126 2.1E-44
2 g7303.t11 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 12 128 1.2E-67
3 g7303.t11 PANTHER PTHR11711:SF340 ADP-RIBOSYLATION FACTOR A1F 12 128 1.2E-67
4 g7303.t11 PRINTS PR00328 GTP-binding SAR1 protein signature 23 48 7.0E-7
5 g7303.t11 PRINTS PR00328 GTP-binding SAR1 protein signature 68 89 7.0E-7
1 g7303.t11 Pfam PF00025 ADP-ribosylation factor family 12 125 4.5E-48
10 g7303.t11 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
11 g7303.t11 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
12 g7303.t11 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 15 -
13 g7303.t11 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 19 -
9 g7303.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 131 -
15 g7303.t11 ProSiteProfiles PS51417 small GTPase Arf family profile. 1 126 15.748
14 g7303.t11 SMART SM00177 arf_sub_2 2 130 2.6E-63
6 g7303.t11 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 12 129 6.15E-35

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