Gene loci information

Transcript annotation

  • This transcript has been annotated as Ribose-phosphate pyrophosphokinase 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_2 g8516 g8516.t9 TTS g8516.t9 31106094 31106094
chr_2 g8516 g8516.t9 isoform g8516.t9 31106395 31111041
chr_2 g8516 g8516.t9 exon g8516.t9.exon1 31106395 31106946
chr_2 g8516 g8516.t9 cds g8516.t9.CDS1 31106395 31106946
chr_2 g8516 g8516.t9 exon g8516.t9.exon2 31107005 31107103
chr_2 g8516 g8516.t9 cds g8516.t9.CDS2 31107005 31107103
chr_2 g8516 g8516.t9 exon g8516.t9.exon3 31109643 31109782
chr_2 g8516 g8516.t9 cds g8516.t9.CDS3 31109643 31109782
chr_2 g8516 g8516.t9 exon g8516.t9.exon4 31109851 31109898
chr_2 g8516 g8516.t9 cds g8516.t9.CDS4 31109851 31109866
chr_2 g8516 g8516.t9 exon g8516.t9.exon5 31110920 31111041
chr_2 g8516 g8516.t9 TSS g8516.t9 31111077 31111077

Sequences

>g8516.t9 Gene=g8516 Length=961
ATGCCTAACATTAAAGTGTTTTCTGGAACTTCACATCCTGATTTAGCTCAAAGAATCGTA
GATCGGTTAGGTATTGACTTGGGAAAAGTTGTAACAAAAAAATTTTCAAACCTGGAAACA
TGTGTGGAGATCGGAGAATCAGTACGTGGAGAGGATGTGTATATCGGTAATTCAATCTGG
TTCGGGAGAAATTAATGACAACTTGATGGAACTTTTAATTATGATAAACGCATGCAAAAT
TGCATCAGCTTCAAGAGTGACAGCTGTGATACCATGTTTTCCATATGCAAGACAAGACAA
AAAAGACAAGAGTAGAGCACCCATTTCGGCAAAACTTGTTGCAAACATGTTGTCAGTTGC
TGGTGCTGACCATATCATTACAATGGATCTTCATGCTTCTCAAATACAGGGTTTCTTTGA
TATACCAGTGGATAATCTCTACGCAGAACCAGCAGTTCTGAAATGGATAAAAGAAAATAT
TCAGGAGTGGCGTAACTCGATTATCGTTTCTCCTGATGCTGGCGGTGCTAAACGTGTGAC
ATCTATTGCTGATCGTCTTAATGTAGAATTTGCATTGATTCACAAAGAACGCAAAAAAGC
AAATGAAGTTGCATCAATGGTGTTAGTTGGAGATGTAAAAGACAGAGTAGCAATTTTAGT
TGATGACATGGCTGATACATGTGGAACAATTTGTCATGCAGCCGAGAAGCTTTTAGAAGC
AGGAGCAACAAAAGTTTATGCCATTTTAACACATGGGATTTTTAGCGGTCCAGCTATTTC
GCGAATAAATAATGCATGTTTCGAGGCGGTCGTTGTCACGAATACAATTCCACAAGATGG
TCATATGAAGGACTGTCCAAAAATACAGTGCATTGATGTGTCTATGATGTTTGCAGAAGC
AGTTCGTAGAACACATAATGGAGAAAGTGTCAGCTATCTTTTTAGTAATGTTCCATATTA
G

>g8516.t9 Gene=g8516 Length=268
MCISVIQSGSGEINDNLMELLIMINACKIASASRVTAVIPCFPYARQDKKDKSRAPISAK
LVANMLSVAGADHIITMDLHASQIQGFFDIPVDNLYAEPAVLKWIKENIQEWRNSIIVSP
DAGGAKRVTSIADRLNVEFALIHKERKKANEVASMVLVGDVKDRVAILVDDMADTCGTIC
HAAEKLLEAGATKVYAILTHGIFSGPAISRINNACFEAVVVTNTIPQDGHMKDCPKIQCI
DVSMMFAEAVRRTHNGESVSYLFSNVPY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g8516.t9 CDD cd06223 PRTases_typeI 97 224 9.48284E-27
7 g8516.t9 Gene3D G3DSA:3.40.50.2020 - 4 254 7.5E-111
6 g8516.t9 Gene3D G3DSA:3.40.50.2020 - 97 240 7.5E-111
3 g8516.t9 PANTHER PTHR10210 RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER 4 267 1.1E-166
4 g8516.t9 PANTHER PTHR10210:SF105 PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE 1-LIKE 3-RELATED 4 267 1.1E-166
2 g8516.t9 Pfam PF13793 N-terminal domain of ribose phosphate pyrophosphokinase 4 70 3.9E-26
1 g8516.t9 Pfam PF14572 Phosphoribosyl synthetase-associated domain 153 263 3.1E-38
9 g8516.t9 ProSitePatterns PS00114 Phosphoribosyl pyrophosphate synthase signature. 78 93 -
10 g8516.t9 SMART SM01400 Pribosyltran_N_2 1 70 2.5E-22
5 g8516.t9 SUPERFAMILY SSF53271 PRTase-like 19 256 1.19E-64
11 g8516.t9 TIGRFAM TIGR01251 ribP_PPkin: ribose-phosphate diphosphokinase 5 264 7.9E-106

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
GO:0009156 ribonucleoside monophosphate biosynthetic process BP
GO:0044249 cellular 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