Gene loci information

Transcript annotation

  • This transcript has been annotated as Phosphoribosyl pyrophosphate synthase-associated protein 2.

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_3 g2494 g2494.t12 TSS g2494.t12 18279890 18279890
chr_3 g2494 g2494.t12 isoform g2494.t12 18280145 18281389
chr_3 g2494 g2494.t12 exon g2494.t12.exon1 18280145 18280402
chr_3 g2494 g2494.t12 cds g2494.t12.CDS1 18280341 18280402
chr_3 g2494 g2494.t12 exon g2494.t12.exon2 18280463 18280510
chr_3 g2494 g2494.t12 cds g2494.t12.CDS2 18280463 18280510
chr_3 g2494 g2494.t12 exon g2494.t12.exon3 18280567 18281389
chr_3 g2494 g2494.t12 cds g2494.t12.CDS3 18280567 18281389
chr_3 g2494 g2494.t12 TTS g2494.t12 18281730 18281730

Sequences

>g2494.t12 Gene=g2494 Length=1129
ATGGATTGTCCGTCAACGTCCGACATTGTGCTTCTGCACGGCAATTCTTGTCCAGAGTTA
GCAAACCTTATTGGCAGGTGAGTGCATGTATAATAAATCTCTGGATTATAACATTAACCT
GAATTCATTCATCCATAGCCGATTAAATATTAAGTCTGGAGGATGCTCAGTTTATCACAA
GCCAAATCGAGAAACAATGGTTGATATCGGTGACTCTGTGCGCGGAAAAGATTGCTATAT
CATACAAACTGGAACAAAGGATTGCAACAACAATATTATGGAATTATTGATAATGGCATA
TGCTTGTAAAACATCAAGCGCAAAATCTATTGTTGCTGTTATTCCTTACTTGCCCTATTC
AAAGCAATGTAAGATGCGTAAACGTGGATCAATTGTCACAAAACTCATTGCTAAAATGAT
GTGTAATGCTGGATTAACTCATGTTATTACAATGGACTTACATCAGAAGGAAATTCAAGG
ATTTTTTGATTGTCCTGTTGATAATCTTCGAGCTTCGCCATTTTTACTTCAATATATTCA
AGAGTCAATTCCTGATTATCGTAATGCTGTTATTGTCGCTCGTAATCCTGGATCGGCTAA
AAAAGCTACCTCTTATGCTGAACGTTTACGTTTAGGAATCGCTGTTATCCATGGTGAACA
AAAAGATGCTGATAATGATGAAATTGACGGTCGAAATTCGCCACCAAATGTTCCAAAAGG
ACGAATGAGTGATATTTCATCAGGATTTCCAAGTCTCGTTGCTAAAGAAAAGCCACCGAT
TAATGTGGTTGGTGATGTGGGAGGCAGAATTGCTGTAATTGTTGATGATTTAATAGATGA
AGTACAATCATTTGTCTCGGCTGCTGAAGTTCTTAAAGAAAGAGGAGCTTATAAAATTTA
TGTTTTGGCAACACATGGTTTGCTTTCTTCTGATGCACCACGCTTAATTGAAGAATCTGC
TATTGATGAAGTTGTCGTTACAAATACTATACCGCATGAAATTCAGAAAATGCAGTGCCA
TAAAATTAAAACAGTCGATATTTCGATTCTTTTGTCAGAAGCTATTCGAAGAATACATAA
CAAAGAATCGATGTCTCATCTTTTCAGAAATGTTACACTTGAGGACTAA

>g2494.t12 Gene=g2494 Length=310
MVDIGDSVRGKDCYIIQTGTKDCNNNIMELLIMAYACKTSSAKSIVAVIPYLPYSKQCKM
RKRGSIVTKLIAKMMCNAGLTHVITMDLHQKEIQGFFDCPVDNLRASPFLLQYIQESIPD
YRNAVIVARNPGSAKKATSYAERLRLGIAVIHGEQKDADNDEIDGRNSPPNVPKGRMSDI
SSGFPSLVAKEKPPINVVGDVGGRIAVIVDDLIDEVQSFVSAAEVLKERGAYKIYVLATH
GLLSSDAPRLIEESAIDEVVVTNTIPHEIQKMQCHKIKTVDISILLSEAIRRIHNKESMS
HLFRNVTLED

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g2494.t12 CDD cd06223 PRTases_typeI 106 264 5.32766E-16
8 g2494.t12 MobiDBLite mobidb-lite consensus disorder prediction 157 177 -
3 g2494.t12 PANTHER PTHR10210 RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER 2 308 1.2E-162
4 g2494.t12 PANTHER PTHR10210:SF28 PHOSPHORIBOSYL PYROPHOSPHATE SYNTHASE-ASSOCIATED PROTEIN 1 2 308 1.2E-162
2 g2494.t12 Pfam PF13793 N-terminal domain of ribose phosphate pyrophosphokinase 2 79 1.3E-27
1 g2494.t12 Pfam PF14572 Phosphoribosyl synthetase-associated domain 120 304 1.6E-99
7 g2494.t12 SMART SM01400 Pribosyltran_N_2 1 79 5.5E-21
5 g2494.t12 SUPERFAMILY SSF53271 PRTase-like 2 119 4.53E-37
6 g2494.t12 SUPERFAMILY SSF53271 PRTase-like 120 303 6.95E-43
9 g2494.t12 TIGRFAM TIGR01251 ribP_PPkin: ribose-phosphate diphosphokinase 2 304 6.9E-77

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:0000287 magnesium ion binding MF
GO:0004749 ribose phosphate diphosphokinase activity MF
GO:0009116 nucleoside metabolic process BP
GO:0009165 nucleotide biosynthetic process BP

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