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.t10 isoform g7303.t10 22846710 22849864
chr_2 g7303 g7303.t10 exon g7303.t10.exon1 22846710 22848182
chr_2 g7303 g7303.t10 TTS g7303.t10 22846712 22846712
chr_2 g7303 g7303.t10 cds g7303.t10.CDS1 22848080 22848182
chr_2 g7303 g7303.t10 exon g7303.t10.exon2 22848249 22848310
chr_2 g7303 g7303.t10 cds g7303.t10.CDS2 22848249 22848310
chr_2 g7303 g7303.t10 exon g7303.t10.exon3 22848386 22848511
chr_2 g7303 g7303.t10 cds g7303.t10.CDS3 22848386 22848511
chr_2 g7303 g7303.t10 exon g7303.t10.exon4 22848617 22848675
chr_2 g7303 g7303.t10 cds g7303.t10.CDS4 22848617 22848675
chr_2 g7303 g7303.t10 exon g7303.t10.exon5 22848744 22848824
chr_2 g7303 g7303.t10 cds g7303.t10.CDS5 22848744 22848824
chr_2 g7303 g7303.t10 exon g7303.t10.exon6 22848955 22849009
chr_2 g7303 g7303.t10 cds g7303.t10.CDS6 22848955 22849009
chr_2 g7303 g7303.t10 exon g7303.t10.exon7 22849085 22849284
chr_2 g7303 g7303.t10 cds g7303.t10.CDS7 22849085 22849147
chr_2 g7303 g7303.t10 exon g7303.t10.exon8 22849729 22849864
chr_2 g7303 g7303.t10 TSS g7303.t10 22850791 22850791

Sequences

>g7303.t10 Gene=g7303 Length=2192
AGTTCAAGTTGAACGTTGAACTGAAATTCTCCGCTTTCGTTCTCAAAAAATAATTTTTAA
GTGAGGATTAGATAAATTATTTCGATATTTAAGGCATCAGGACATTTAGAAAACTGAAGT
TAAGCATCAAGCGTAGATAAAGCTATATCGTCGCTAAACACAAGAAAAACTATAATTTAG
AAAGGAAACTGCGAGTGCAAGAGGAGAAAAAAAGAAGATTGTGTGTGACCTGTGAAATTA
TATACATTCGAAAAGAAGACTTAATAAATAAAGATGGGAAACGTATTTGCTAATCTGTTC
AAAGGTTTATTTGGTAAAAAGGAGATGAGAATATTGATGGTTGGTCTCGATGCTGCTGGT
AAAACGACAATTTTATACAAGCTTAAATTAGGTGAAATTGTAACTACAATCCCAACCATT
GGCTTCAACGTTGAAACTGTAGAATACAAAAATATTTCATTTACTGTTTGGGATGTTGGT
GGTCAAGACAAAATCCGCCCACTCTGGAGACATTATTTCCAAAATACCCAAGGGCTTATC
TTTGTCGTTGATAGTAATGACCGTGAGCGTGTTGGTGAAGCTCGTGAAGAATTAATGAGA
ATGTTGGCTGAAGATGAATTGAGGGATGCTGTGCTTTTAATTTTTGCCAACAAGCAGGAT
TTGCCCAATGCTATGAATGCAGCCGAAATCACAGATAAATTAGGTCTTCACTCATTACGA
AACCGAAGCTGGTATATTCAAGCAACGTGTGCAACCAGTGGAGATGGCCTCTATGAAGGT
TTGGATTGGCTTTCGAATCAACTGAAGAACGCTAACCGCTAAGAATCCGAATATAAATGA
AGAAATAATATGAAAGTATTGATCTACCAACCATCAAAAAAACTTACATTTAATTATTTT
CAAGCAAAAAAATGAGAGAAAAAGATAAAGAGAAATTGATTAAATAAATTCACAATATTC
GGGATATTGAAACAAAAAAAAATAAAACAAGCAGAAAATTTAATGATATAAAAAACACAC
AGATTAAGGCATAAAAATCATTGCAAGAGGAAACAAAAAACACACTTTTAAATGAGAAAA
AAATAATGAAAAAACATTGCTGTCGTTAAGAAATATAAATAAAAAAGGCACTTCGGTGTT
CGATGATAAAATAAAATTTAAGTAAAAGAATAATATCCATACTATTATTTAAACGCAAGA
TGACGAAAGATGAATTAATTATAAAAATATATAAATTTACTTTTTTGAGCAAGCTGTATG
ATGAGGAAGACAATTTCATAGATCATTTTATCTTTTTTTCAAAATGAGTTTCTAACAAAA
TCATACACACTCAGCAAACACATACATTTACTATATTAAAAAAATTTATTTGCAAAAAAA
TAAGGAAATTGGAGGTTGAAAAGATGAAAATGCTTATAAAAAGATTGATAAAAAAATTAA
ATTAAAGTACAGACAAACACACATATATAATCTATTTGTTAAATTCATATTTCAATGGCA
TTATTATTGAGCAACAATAATCTGGGTCTTTTCATTAGGAGCTTCTTTCTTTTTTATTAT
TATTTTTTCTTTTTTTACATATTTTTATTTTTTGAAGAAACAATTAAATTAAGGAAGTTG
AAGAATGAACACTGATTTAAGGGAAAAATAATAATTGTGTAAAATGCTTTAGCTAAGTAA
ATCAAGTGAAATAATTATTTCAAGACGATGATTTTCATGCTGCTCTGCAATAGTTTAAAT
TAAAAGAAAAAGAATGGTAAAAGAAGTGATGAGAGAGGATTTCGATTTCATATTGACTTT
ATGTTTGAAATTAAGATACAATTTCATAACGTTTTAAAAATGAATTTTTTAGATACATAA
AATAAAAACAGTGGAAAAAAAACTTTACATACATCTGACACTGAATTTAGTTTCTAAATA
GCTCTATTTAATTAATGTTTGTAAATTATTGTCTTAAATTTCATTTTTTTCCAATGGGTT
GAGTTTTGATTTTATTTTCCTCTCACTCTCTTTTTCGTCAATAAACTTCTGTTCATCATC
CTCCTACTTTTTTTGGTTGACTTATGTTTAAACAAAAAAGAATAAGAAATGTGAAATGAC
GTTCTTTTCATCATGTAACGAAATTATGTTTAAAAGAATTCCAACTTACAATTATAACTT
CTTATTTTAATAAAAATTTATATAATTATGAA

>g7303.t10 Gene=g7303 Length=182
MGNVFANLFKGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKN
ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVGEAREELMRMLAEDELRDAV
LLIFANKQDLPNAMNAAEITDKLGLHSLRNRSWYIQATCATSGDGLYEGLDWLSNQLKNA
NR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g7303.t10 CDD cd04150 Arf1_5_like 18 176 0.0000
9 g7303.t10 Gene3D G3DSA:3.40.50.300 - 18 177 0.0000
2 g7303.t10 PANTHER PTHR11711 ADP RIBOSYLATION FACTOR-RELATED 1 180 0.0000
3 g7303.t10 PANTHER PTHR11711:SF357 ADP-RIBOSYLATION FACTOR 1 1 180 0.0000
4 g7303.t10 PRINTS PR00328 GTP-binding SAR1 protein signature 19 42 0.0000
7 g7303.t10 PRINTS PR00328 GTP-binding SAR1 protein signature 47 71 0.0000
5 g7303.t10 PRINTS PR00328 GTP-binding SAR1 protein signature 74 99 0.0000
6 g7303.t10 PRINTS PR00328 GTP-binding SAR1 protein signature 119 140 0.0000
1 g7303.t10 Pfam PF00025 ADP-ribosylation factor family 7 176 0.0000
15 g7303.t10 ProSiteProfiles PS51417 small GTPase Arf family profile. 11 177 25.3130
11 g7303.t10 SMART SM00177 arf_sub_2 1 181 0.0000
13 g7303.t10 SMART SM00178 sar_sub_1 1 177 0.0000
12 g7303.t10 SMART SM00175 rab_sub_5 18 180 0.0042
8 g7303.t10 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 14 180 0.0000
14 g7303.t10 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