Gene loci information

Transcript annotation

  • This transcript has been annotated as UMP-CMP kinase.

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 g12412 g12412.t1 TSS g12412.t1 23433644 23433644
chr_1 g12412 g12412.t1 isoform g12412.t1 23433828 23434633
chr_1 g12412 g12412.t1 exon g12412.t1.exon1 23433828 23433873
chr_1 g12412 g12412.t1 cds g12412.t1.CDS1 23433828 23433873
chr_1 g12412 g12412.t1 exon g12412.t1.exon2 23433935 23434140
chr_1 g12412 g12412.t1 cds g12412.t1.CDS2 23433935 23434140
chr_1 g12412 g12412.t1 exon g12412.t1.exon3 23434271 23434633
chr_1 g12412 g12412.t1 cds g12412.t1.CDS3 23434271 23434633
chr_1 g12412 g12412.t1 TTS g12412.t1 23434931 23434931

Sequences

>g12412.t1 Gene=g12412 Length=615
ATGGCAAACGAAAAACCAAAAATTATTTTTGTTCTCGGTGCACCAGGTGCTGGAAAAGGA
ACTCAATGTGAGAAAATTGTAAATTCATTTGGATTCAAGCATCTTTCTGCAGGTGATTTA
TTAAGAGAAGAACGAGCACGAGAAGGATCACAATTTGGACAATTAATTGAAGACTATATT
ACTAATGGAAAAATTGTTCCAGTTGAAATTACTTGTAGTTTATTAGAAAATGCAATGATC
AAATCTAAAAAGGAAACAGGAGTCAATAAGTTTCTAATCGATGGCTTTCCACGTAATGAA
GACAATTTACAAGGCTGGGAAAGACAAATGGCAGAAAAAGTCGATTTTCTTTTCGTTCTC
TTTCTCGATTGCTCGGAAGAAAAGTGTGTCGAGAGATGCTTAAAAAGAGGTCAAGCTGGA
AGTGGTCGCACTGATGATAATCTCGAGAGTCTCAAGAAACGTTTCAATACATATTTAAAT
GACACAATGCCAATAATTGACCATTATCGTTCAATGAATAAAGTTAGAAAAATTGACACA
AGCCCAAGCGCTAACGAAGTTTTTGCTGAAGTTGAATTAGCATTTAAAGAAGCGCAGGCA
GCTAATTTATTTTAA

>g12412.t1 Gene=g12412 Length=204
MANEKPKIIFVLGAPGAGKGTQCEKIVNSFGFKHLSAGDLLREERAREGSQFGQLIEDYI
TNGKIVPVEITCSLLENAMIKSKKETGVNKFLIDGFPRNEDNLQGWERQMAEKVDFLFVL
FLDCSEEKCVERCLKRGQAGSGRTDDNLESLKKRFNTYLNDTMPIIDHYRSMNKVRKIDT
SPSANEVFAEVELAFKEAQAANLF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g12412.t1 CDD cd01428 ADK 8 187 2.94957E-69
12 g12412.t1 Gene3D G3DSA:3.40.50.300 - 1 197 1.3E-62
4 g12412.t1 Hamap MF_03172 UMP-CMP kinase [CMPK1]. 6 198 43.99963
5 g12412.t1 Hamap MF_00235 Adenylate kinase [adk]. 7 196 36.809799
2 g12412.t1 PANTHER PTHR23359 NUCLEOTIDE KINASE 6 196 1.4E-68
3 g12412.t1 PANTHER PTHR23359:SF206 UMP-CMP KINASE 6 196 1.4E-68
10 g12412.t1 PRINTS PR00094 Adenylate kinase signature 10 23 1.0E-24
7 g12412.t1 PRINTS PR00094 Adenylate kinase signature 38 52 1.0E-24
6 g12412.t1 PRINTS PR00094 Adenylate kinase signature 91 107 1.0E-24
8 g12412.t1 PRINTS PR00094 Adenylate kinase signature 143 158 1.0E-24
9 g12412.t1 PRINTS PR00094 Adenylate kinase signature 160 174 1.0E-24
1 g12412.t1 Pfam PF00406 Adenylate kinase 11 172 2.8E-44
14 g12412.t1 ProSitePatterns PS00113 Adenylate kinase signature. 91 102 -
11 g12412.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 194 9.1E-38
15 g12412.t1 TIGRFAM TIGR01359 UMP_CMP_kin_fam: UMP-CMP kinase family 8 195 1.0E-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:0009041 uridylate kinase activity MF
GO:0006221 pyrimidine nucleotide biosynthetic process BP
GO:0005524 ATP binding MF
GO:0006207 ‘de novo’ pyrimidine nucleobase biosynthetic process BP
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0004127 cytidylate kinase activity MF
GO:0019205 nucleobase-containing compound kinase activity MF

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