Gene loci information

Transcript annotation

  • This transcript has been annotated as Nicotinate phosphoribosyltransferase.

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_1 g12267 g12267.t4 TSS g12267.t4 22086345 22086345
chr_1 g12267 g12267.t4 isoform g12267.t4 22087093 22090993
chr_1 g12267 g12267.t4 exon g12267.t4.exon1 22087093 22087602
chr_1 g12267 g12267.t4 cds g12267.t4.CDS1 22087110 22087602
chr_1 g12267 g12267.t4 exon g12267.t4.exon2 22088502 22088642
chr_1 g12267 g12267.t4 cds g12267.t4.CDS2 22088502 22088642
chr_1 g12267 g12267.t4 exon g12267.t4.exon3 22088729 22088900
chr_1 g12267 g12267.t4 cds g12267.t4.CDS3 22088729 22088900
chr_1 g12267 g12267.t4 exon g12267.t4.exon4 22090053 22090306
chr_1 g12267 g12267.t4 cds g12267.t4.CDS4 22090053 22090306
chr_1 g12267 g12267.t4 exon g12267.t4.exon5 22090367 22090640
chr_1 g12267 g12267.t4 cds g12267.t4.CDS5 22090367 22090640
chr_1 g12267 g12267.t4 exon g12267.t4.exon6 22090706 22090853
chr_1 g12267 g12267.t4 cds g12267.t4.CDS6 22090706 22090853
chr_1 g12267 g12267.t4 exon g12267.t4.exon7 22090916 22090993
chr_1 g12267 g12267.t4 cds g12267.t4.CDS7 22090916 22090993
chr_1 g12267 g12267.t4 TTS g12267.t4 22091578 22091578

Sequences

>g12267.t4 Gene=g12267 Length=1577
ATCTTTATCAGATAACGATGGCGTATGCTTATTGGAAATCAGGCAAAATAGAAGATCAAG
CTGTATTTGATTTGTTCTTCCGAAAAAATCCATTTCATGGCGAATTTACTATTTTTTGTG
GCCTAGAGGAATGTTTGAAATTTATTAAAAATTTCCATTATTCAGCGGGTGATATCAATT
ATCTCAAGTCTGTTTTGCCTGAAGGGATTGAGGAGGAATTTTTCGAGTATTTGGGAAAGT
TGACTGCAAAAGACGTTACACTTTATGCTCTCGATGAAGGATCAGTTACATTTCCTCGTA
TTCCATTGATGAGACTTGAAGGTCCTTTAATTATTGTACAACTACTCGAAACAACACTCT
TGACACTTGTCAATTATGCAAGTCTTATGGCTACTAATGCTGCTCGATACAGAATTGTAG
CTGGACCAGTAGCGAAACTATTAGAATTTGGTTTGCGACGTGCTCAAGGTCCCGATGGAG
GACTTTCTTCTTCAAAATATGCATACATTGGTGGTTTTGATGGGACATCAAATGTGTTAG
CTGGAAAATTATTTAATATACCAGTAAAAGGAACACATGCTCATGCATACATAACTTCAT
ATTCTGGTTTTGATGAGCTTGTTACTCGAGAACTTCCACATCGTGAAAGTGGTGCTACAG
CTGATTTGCTTGAGCTCTCTATTGAACATCGAAAAAATTTATCGAGTGTGCTGCATATAA
GTACACAAGAGGCAAACGATGGTGAATTGGCGGCCATGGTGTCATTTGCAATTGCATTTC
CCGATGGATTCATGGCTCTCGTCGACACGTACGATGTTAAACGGAGTGGACTTTTGAATT
TTTGTGCTGTTGCATTATCATTGAATGATCAAGGTTATCGTCCCGTTGGTATCCGAATAG
ATTCTGGTGATTTGGCATATCTCTCATGTTTAGCGCGGCAAAATTTCATCACAATCAGTG
AATATTACGGTTTGCCATGGTTTGCTGAATTAACTATTGTCGCATCAAATGATATCAATG
AAGAAACTATTTTAAGTTTAAATGAACAAGGTCACAAGATTGATTGTTTTGGAATTGGTA
CTCATTTGGTAACATGTCAAAAGCAGCCTGCATTGGGATGCGTTTACAAACTTGTTGAGA
TCAATAATCAACCGCGAATAAAATTGAGTCAAGATGCTGAAAAAATAACTATGCCTGGGA
AAAAGAATGTTTTCCGATTGTATGGAACTGAAGGATGGGCTGTGATTGATATTCTGCAAA
AAGACGATGAAGATCCGCCTGAACCTGGAAAAAAAGTTTTATGTCGTCATCCTTTCCATG
AATCTAAACGAGCATTTGTAACACCTGCAAGAGTTGAAACTTTATATAAAATTTGGTGGA
AAGACGGTGCGATACGTCAACCAATACCAAGTTTGGAGGAAGTTAGAAATCGCGTACAGG
AATCTTTGGGAACTTTACGTCAAGATCATTTAAGACATTTGAATCCTACTCCGTACAAAG
TTGCTGTAAGTGATAATCTCTACAATTTTCTCCATGATTTGTGGTTATTAAATCAACCTA
TCGGGGAACTCTCGTGA

>g12267.t4 Gene=g12267 Length=519
MAYAYWKSGKIEDQAVFDLFFRKNPFHGEFTIFCGLEECLKFIKNFHYSAGDINYLKSVL
PEGIEEEFFEYLGKLTAKDVTLYALDEGSVTFPRIPLMRLEGPLIIVQLLETTLLTLVNY
ASLMATNAARYRIVAGPVAKLLEFGLRRAQGPDGGLSSSKYAYIGGFDGTSNVLAGKLFN
IPVKGTHAHAYITSYSGFDELVTRELPHRESGATADLLELSIEHRKNLSSVLHISTQEAN
DGELAAMVSFAIAFPDGFMALVDTYDVKRSGLLNFCAVALSLNDQGYRPVGIRIDSGDLA
YLSCLARQNFITISEYYGLPWFAELTIVASNDINEETILSLNEQGHKIDCFGIGTHLVTC
QKQPALGCVYKLVEINNQPRIKLSQDAEKITMPGKKNVFRLYGTEGWAVIDILQKDDEDP
PEPGKKVLCRHPFHESKRAFVTPARVETLYKIWWKDGAIRQPIPSLEEVRNRVQESLGTL
RQDHLRHLNPTPYKVAVSDNLYNFLHDLWLLNQPIGELS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g12267.t4 CDD cd01570 NAPRTase_A 1 373 0
7 g12267.t4 Gene3D G3DSA:3.20.140.10 nicotinate phosphoribosyltransferase 1 141 0
9 g12267.t4 Gene3D G3DSA:3.20.20.70 Aldolase class I 142 208 0
8 g12267.t4 Gene3D G3DSA:3.20.140.10 nicotinate phosphoribosyltransferase 331 514 0
4 g12267.t4 PANTHER PTHR11098 NICOTINATE PHOSPHORIBOSYLTRANSFERASE 1 505 0
11 g12267.t4 PIRSF PIRSF000484 NAPRT 1 515 0
2 g12267.t4 Pfam PF17767 Nicotinate phosphoribosyltransferase (NAPRTase) N-terminal domain 1 119 0
3 g12267.t4 Pfam PF04095 Nicotinate phosphoribosyltransferase (NAPRTase) family 140 390 0
1 g12267.t4 Pfam PF17956 Nicotinate phosphoribosyltransferase C-terminal domain 395 504 0
6 g12267.t4 SUPERFAMILY SSF54675 Nicotinate/Quinolinate PRTase N-terminal domain-like 1 123 0
5 g12267.t4 SUPERFAMILY SSF51690 Nicotinate/Quinolinate PRTase C-terminal domain-like 125 514 0
10 g12267.t4 TIGRFAM TIGR01513 NAPRTase_put: nicotinate phosphoribosyltransferase 1 501 0

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:0004516 nicotinate phosphoribosyltransferase activity MF
GO:0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity MF
GO:0003824 catalytic activity MF
GO:0009435 NAD biosynthetic process BP

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