Gene loci information

Transcript annotation

  • This transcript has been annotated as Selenide, water dikinase 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_4 g16912 g16912.t2 TSS g16912.t2 11698815 11698815
chr_4 g16912 g16912.t2 isoform g16912.t2 11698889 11700074
chr_4 g16912 g16912.t2 exon g16912.t2.exon1 11698889 11698892
chr_4 g16912 g16912.t2 cds g16912.t2.CDS1 11698889 11698892
chr_4 g16912 g16912.t2 exon g16912.t2.exon2 11698983 11699018
chr_4 g16912 g16912.t2 cds g16912.t2.CDS2 11698983 11699018
chr_4 g16912 g16912.t2 exon g16912.t2.exon3 11699077 11699193
chr_4 g16912 g16912.t2 cds g16912.t2.CDS3 11699077 11699193
chr_4 g16912 g16912.t2 exon g16912.t2.exon4 11699254 11700074
chr_4 g16912 g16912.t2 cds g16912.t2.CDS4 11699254 11700074
chr_4 g16912 g16912.t2 TTS g16912.t2 11700544 11700544

Sequences

>g16912.t2 Gene=g16912 Length=978
ATGATTTATGAGAAATCTTTGGGAAAATCCGATTCACAAGCAATCGGAATAGGATTAGAT
TCAGCAATAATTCCATTAAACAACAACAACAAAAATCTTTATTTAGTTCAATCAGTTGAT
TTTTTCTATCCACTTTGTGATGATGCAAACTTAATGGGTAAAATCGCGTTTGCCAATGTA
GTCAGTGATATTTACTCATGTGGTGTTGCTGATATCGATGAAGTAAAAATAATTTTAAGT
ATGCCGGATGAACTCAATGAGGAACAACAGCAACAAGTGGCAAATGATCTTATCTCTGGA
TTTCGTGAGTCAGCAAAGCTCATAAAATGCAGATTGACATTGGAAAGCATCAACATCAAT
CCTTGGTGCATGATTGGTGGGATTGCAACTTCAATATGCACAAAAGATGAGCTTGTTTTC
CCAACTGGTGCTCTTCCTGGTGATGCTATAATTTTAACTAAACCACTTGGTGTTCAATTG
GCAACAAATGCAAAAATTTGGCTTGATGAAAATTCTGAAAGTTGGAAAAAATTGAGTCAA
CATTTGACTGAAGATGATGTGAAAGAAAGCTATGAAAAAGCATTAAAATCCATGGTAACT
TTGAATCATCTTGGTGCTAAATTGATGCAGAAATATAAAGCTCATTGTGCTACAGATGTG
ACTGGATTTGGCATTATTGGACATGCTGAAAATTTGATTGAATTTCAAGAACAAAATGTG
AATTTTGTCATCAATAAAATGCCATTAATCAAGCATGTTAAGAAAATGTCAGAAATTCTC
AACAGAACACAAAAAATGTTGAATGGAAAAATGGTTGAAACATCAGGTGGATTATTTTTG
TGTTTACCAAGTGAAAATGCTCAAGCATTTTGTGATGATTTCTTTTCTTCATCTGGTGAT
GCATGTTGGATTATTGGACGAGTTGAAAAAGGCGATAAAAAAGTTTTACTGGAAAATGTT
GAATTTATTGAAATTTAA

>g16912.t2 Gene=g16912 Length=325
MIYEKSLGKSDSQAIGIGLDSAIIPLNNNNKNLYLVQSVDFFYPLCDDANLMGKIAFANV
VSDIYSCGVADIDEVKIILSMPDELNEEQQQQVANDLISGFRESAKLIKCRLTLESININ
PWCMIGGIATSICTKDELVFPTGALPGDAIILTKPLGVQLATNAKIWLDENSESWKKLSQ
HLTEDDVKESYEKALKSMVTLNHLGAKLMQKYKAHCATDVTGFGIIGHAENLIEFQEQNV
NFVINKMPLIKHVKKMSEILNRTQKMLNGKMVETSGGLFLCLPSENAQAFCDDFFSSSGD
ACWIIGRVEKGDKKVLLENVEFIEI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g16912.t2 Gene3D G3DSA:3.90.650.10 - 6 324 0
6 g16912.t2 Gene3D G3DSA:3.30.1330.10 - 21 138 0
2 g16912.t2 PANTHER PTHR10256 SELENIDE, WATER DIKINASE 12 320 0
1 g16912.t2 Pfam PF02769 AIR synthase related protein, C-terminal domain 146 315 0
4 g16912.t2 SUPERFAMILY SSF55326 PurM N-terminal domain-like 11 137 0
3 g16912.t2 SUPERFAMILY SSF56042 PurM C-terminal domain-like 140 316 0
7 g16912.t2 TIGRFAM TIGR00476 selD: selenide, water dikinase 16 265 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:0005524 ATP 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