Gene loci information

Transcript annotation

  • This transcript has been annotated as Nucleolar GTP-binding 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 g3523 g3523.t5 isoform g3523.t5 26189606 26191109
chr_3 g3523 g3523.t5 exon g3523.t5.exon1 26189606 26190767
chr_3 g3523 g3523.t5 cds g3523.t5.CDS1 26189792 26190767
chr_3 g3523 g3523.t5 exon g3523.t5.exon2 26190823 26191016
chr_3 g3523 g3523.t5 cds g3523.t5.CDS2 26190823 26191016
chr_3 g3523 g3523.t5 exon g3523.t5.exon3 26191071 26191109
chr_3 g3523 g3523.t5 cds g3523.t5.CDS3 26191071 26191109
chr_3 g3523 g3523.t5 TTS g3523.t5 26192027 26192027
chr_3 g3523 g3523.t5 TSS g3523.t5 NA NA

Sequences

>g3523.t5 Gene=g3523 Length=1395
ATGAAATTTCTGACACGAATACATTCCCGTAATATTTTTATTGAGCCCAATTGGGGGTAC
ACTACTTTTATTTTTTTTTCTCAATTTAGTTGTCAACAAAAACACATGTGAGTTGTGAAT
TCTCTAAATTGCAAGAATCAAAATTTAAATTAGGAGTGATATTAATTTAATTTCACAGTT
AAAACAATGGCAAAGACAACTTCAAGATCAGGCCCTCCAAGAAAGGAAGGAAGAATGAAT
AAAAGCAGTCATTCATTGAATCCTGAGCGATCAGCAGAAAATGTTAAAGGCGGAAGGGTA
AGAACAAAATCTACAATCCAGAGATTGCAAATGTACAGAAACTTTAAAGCAAAAAGAGAT
CGTAGAGGAAAAATAATTAAAGCAGCACCATTTCAAGGATGGTTAGCATCTGGCACACAA
TCAAGAGTCGAACCGTCACCAAAATGGTTCAGCAATTCAAGAGTTATTTCACAATCAGCA
TTACAGAAATTTCAAGATGAAATGGGAAAAGTTATGAAAGATCCCTATCAAGTAGTGATG
AAACCAACAAATTTACCAATTACTCTGCTTAATGAAAGTGCAAAATATCAGCGAGTTCAT
TTACTTGATACACAATCATTTTCTTCAACATTTGGTCCTAAAGCTCAACGCAAAAGACCA
ACTTTGAAAGTTAAAGATTTAGATGATATGGTGAAAGCAGCAGAGCAAGCATCAGAAACA
TATAATGACGAGAAAGATTATGATTTGATCAGAGACGATGGTGGAGTTCGTCAAATGCCA
CGAGACTGGGTGTTTGCTGCTGGCCAGAGTAAAAGAATTTGGAATGAATTGCACAAAGTA
ATTGATTCAGCTGATGTGCTTTTACAAGTTTTAGACGCTCGTGATCCAATGGGAACAAGA
TCAAAATATATAGAGGAATTTTTGCGAAAAGAAAAGAAACATAAACATCTTTTCTTTGTT
CTTAATAAAGTTGATTTGGTGCCGATTTGGGTAACACAACGATGGGTGGCAATTCTTTCC
TCAGAATATCCTACAATTGCTTTTCATGCATCTTTGACACATCCTTTTGGTAAAGGTGCA
CTTATTAATCTTTTGCGTCAAGTTGGAAAACTTCATGTTGACAAAAAACAAATCAGCATA
GGTTTCATAGGCTATCCTAATGTTGGTAAATCTTCTGTCATTAATGCACTTCGTGGAAAG
AAAGTTTGTAATGTAGCTCCAATTGCTGGTGAAACAAAAGTATGGCAATATATTACTTTA
ATGAAAAGAATATTCCTAATTGACTGTCCAGGAGTAGTTTATCCAACAGCAGAAACTGAT
GCAGAAAAAGTGCTAAAAGGAGTTGTTCGTGTAGAATTGGTTACAAATCCTGAAGATTAT
GTTGAAGAAGTTTTA

>g3523.t5 Gene=g3523 Length=403
MAKTTSRSGPPRKEGRMNKSSHSLNPERSAENVKGGRVRTKSTIQRLQMYRNFKAKRDRR
GKIIKAAPFQGWLASGTQSRVEPSPKWFSNSRVISQSALQKFQDEMGKVMKDPYQVVMKP
TNLPITLLNESAKYQRVHLLDTQSFSSTFGPKAQRKRPTLKVKDLDDMVKAAEQASETYN
DEKDYDLIRDDGGVRQMPRDWVFAAGQSKRIWNELHKVIDSADVLLQVLDARDPMGTRSK
YIEEFLRKEKKHKHLFFVLNKVDLVPIWVTQRWVAILSSEYPTIAFHASLTHPFGKGALI
NLLRQVGKLHVDKKQISIGFIGYPNVGKSSVINALRGKKVCNVAPIAGETKVWQYITLMK
RIFLIDCPGVVYPTAETDAEKVLKGVVRVELVTNPEDYVEEVL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g3523.t5 CDD cd01858 NGP_1 214 370 2.05096E-121
9 g3523.t5 Coils Coil Coil 162 182 -
8 g3523.t5 Gene3D G3DSA:3.40.50.300 - 202 372 6.1E-44
11 g3523.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 39 -
3 g3523.t5 PANTHER PTHR11089 GTP-BINDING PROTEIN-RELATED 10 403 2.4E-202
4 g3523.t5 PANTHER PTHR11089:SF9 NUCLEOLAR GTP-BINDING PROTEIN 2 10 403 2.4E-202
6 g3523.t5 PRINTS PR00326 GTP1/OBG GTP-binding protein family signature 318 338 5.3E-7
5 g3523.t5 PRINTS PR00326 GTP1/OBG GTP-binding protein family signature 364 379 5.3E-7
2 g3523.t5 Pfam PF08153 NGP1NT (NUC091) domain 49 179 5.1E-49
1 g3523.t5 Pfam PF01926 50S ribosome-binding GTPase 318 380 1.6E-13
12 g3523.t5 ProSiteProfiles PS51721 Circularly permuted (CP)-type guanine nucleotide-binding (G) domain profile. 212 373 32.157
7 g3523.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 208 399 2.46E-40

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:0005730 nucleolus CC
GO:0005525 GTP binding MF

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.

Raw TPM values