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.t5 TTS g8516.t5 31106094 31106094
chr_2 g8516 g8516.t5 isoform g8516.t5 31106395 31109769
chr_2 g8516 g8516.t5 exon g8516.t5.exon1 31106395 31106946
chr_2 g8516 g8516.t5 cds g8516.t5.CDS1 31106395 31106946
chr_2 g8516 g8516.t5 exon g8516.t5.exon2 31107005 31107103
chr_2 g8516 g8516.t5 cds g8516.t5.CDS2 31107005 31107103
chr_2 g8516 g8516.t5 exon g8516.t5.exon3 31108824 31108880
chr_2 g8516 g8516.t5 cds g8516.t5.CDS3 31108824 31108880
chr_2 g8516 g8516.t5 exon g8516.t5.exon4 31109643 31109769
chr_2 g8516 g8516.t5 cds g8516.t5.CDS4 31109643 31109747
chr_2 g8516 g8516.t5 TSS g8516.t5 NA NA

Sequences

>g8516.t5 Gene=g8516 Length=835
GGGAGAAATTAATGACAACTTGATGGAACTTTTAATTATGATAAACGCATGCAAAATTGC
ATCAGCTTCAAGAGTGACAGCTGTGATACCATGTTTTCCATATGCAAGACAAGACAAAAA
AGACAAGTCTGGCGATGAAAAGTTAGCTCAACTGATGAAGAAGTCAAATGAATGGAAATT
TCGGAGTAGAGCACCCATTTCGGCAAAACTTGTTGCAAACATGTTGTCAGTTGCTGGTGC
TGACCATATCATTACAATGGATCTTCATGCTTCTCAAATACAGGGTTTCTTTGATATACC
AGTGGATAATCTCTACGCAGAACCAGCAGTTCTGAAATGGATAAAAGAAAATATTCAGGA
GTGGCGTAACTCGATTATCGTTTCTCCTGATGCTGGCGGTGCTAAACGTGTGACATCTAT
TGCTGATCGTCTTAATGTAGAATTTGCATTGATTCACAAAGAACGCAAAAAAGCAAATGA
AGTTGCATCAATGGTGTTAGTTGGAGATGTAAAAGACAGAGTAGCAATTTTAGTTGATGA
CATGGCTGATACATGTGGAACAATTTGTCATGCAGCCGAGAAGCTTTTAGAAGCAGGAGC
AACAAAAGTTTATGCCATTTTAACACATGGGATTTTTAGCGGTCCAGCTATTTCGCGAAT
AAATAATGCATGTTTCGAGGCGGTCGTTGTCACGAATACAATTCCACAAGATGGTCATAT
GAAGGACTGTCCAAAAATACAGTGCATTGATGTGTCTATGATGTTTGCAGAAGCAGTTCG
TAGAACACATAATGGAGAAAGTGTCAGCTATCTTTTTAGTAATGTTCCATATTAG

>g8516.t5 Gene=g8516 Length=270
MELLIMINACKIASASRVTAVIPCFPYARQDKKDKSGDEKLAQLMKKSNEWKFRSRAPIS
AKLVANMLSVAGADHIITMDLHASQIQGFFDIPVDNLYAEPAVLKWIKENIQEWRNSIIV
SPDAGGAKRVTSIADRLNVEFALIHKERKKANEVASMVLVGDVKDRVAILVDDMADTCGT
ICHAAEKLLEAGATKVYAILTHGIFSGPAISRINNACFEAVVVTNTIPQDGHMKDCPKIQ
CIDVSMMFAEAVRRTHNGESVSYLFSNVPY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g8516.t5 CDD cd06223 PRTases_typeI 99 226 2.80554E-27
8 g8516.t5 Gene3D G3DSA:3.40.50.2020 - 1 254 2.0E-93
9 g8516.t5 Gene3D G3DSA:3.40.50.2020 - 99 242 2.0E-93
3 g8516.t5 PANTHER PTHR10210 RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER 1 44 1.2E-154
5 g8516.t5 PANTHER PTHR10210:SF105 PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE 1-LIKE 3-RELATED 1 44 1.2E-154
4 g8516.t5 PANTHER PTHR10210 RIBOSE-PHOSPHATE DIPHOSPHOKINASE FAMILY MEMBER 51 269 1.2E-154
6 g8516.t5 PANTHER PTHR10210:SF105 PHOSPHORIBOSYL PYROPHOSPHATE SYNTHETASE 1-LIKE 3-RELATED 51 269 1.2E-154
2 g8516.t5 Pfam PF13793 N-terminal domain of ribose phosphate pyrophosphokinase 1 72 7.9E-16
1 g8516.t5 Pfam PF14572 Phosphoribosyl synthetase-associated domain 155 265 3.2E-38
11 g8516.t5 ProSitePatterns PS00114 Phosphoribosyl pyrophosphate synthase signature. 80 95 -
12 g8516.t5 SMART SM01400 Pribosyltran_N_2 1 72 5.6E-6
7 g8516.t5 SUPERFAMILY SSF53271 PRTase-like 2 258 2.92E-60
13 g8516.t5 TIGRFAM TIGR01251 ribP_PPkin: ribose-phosphate diphosphokinase 52 266 3.0E-82

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