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.t6 TSS g16912.t6 11698815 11698815
chr_4 g16912 g16912.t6 isoform g16912.t6 11698889 11700509
chr_4 g16912 g16912.t6 exon g16912.t6.exon1 11698889 11699018
chr_4 g16912 g16912.t6 exon g16912.t6.exon2 11699095 11699193
chr_4 g16912 g16912.t6 cds g16912.t6.CDS1 11699190 11699193
chr_4 g16912 g16912.t6 exon g16912.t6.exon3 11699254 11700509
chr_4 g16912 g16912.t6 cds g16912.t6.CDS2 11699254 11700074
chr_4 g16912 g16912.t6 TTS g16912.t6 11700544 11700544

Sequences

>g16912.t6 Gene=g16912 Length=1485
ATGAGTGAGAAAGTGAAATTAACAAAATTTAGTACTTTGCGTGGATGAGGTTGCAAGGTA
CCCGAAGATGTACTCAAAAAACTTCTTAATAAAGTTTATGAGAAATCTTTGGGAAAATCC
GATTCACAAGATTCAGCAATAATTCCATTAAACAACAACAACAAAAATCTTTATTTAGTT
CAATCAGTTGATTTTTTCTATCCACTTTGTGATGATGCAAACTTAATGGGTAAAATCGCG
TTTGCCAATGTAGTCAGTGATATTTACTCATGTGGTGTTGCTGATATCGATGAAGTAAAA
ATAATTTTAAGTATGCCGGATGAACTCAATGAGGAACAACAGCAACAAGTGGCAAATGAT
CTTATCTCTGGATTTCGTGAGTCAGCAAAGCTCATAAAATGCAGATTGACATTGGAAAGC
ATCAACATCAATCCTTGGTGCATGATTGGTGGGATTGCAACTTCAATATGCACAAAAGAT
GAGCTTGTTTTCCCAACTGGTGCTCTTCCTGGTGATGCTATAATTTTAACTAAACCACTT
GGTGTTCAATTGGCAACAAATGCAAAAATTTGGCTTGATGAAAATTCTGAAAGTTGGAAA
AAATTGAGTCAACATTTGACTGAAGATGATGTGAAAGAAAGCTATGAAAAAGCATTAAAA
TCCATGGTAACTTTGAATCATCTTGGTGCTAAATTGATGCAGAAATATAAAGCTCATTGT
GCTACAGATGTGACTGGATTTGGCATTATTGGACATGCTGAAAATTTGATTGAATTTCAA
GAACAAAATGTGAATTTTGTCATCAATAAAATGCCATTAATCAAGCATGTTAAGAAAATG
TCAGAAATTCTCAACAGAACACAAAAAATGTTGAATGGAAAAATGGTTGAAACATCAGGT
GGATTATTTTTGTGTTTACCAAGTGAAAATGCTCAAGCATTTTGTGATGATTTCTTTTCT
TCATCTGGTGATGCATGTTGGATTATTGGACGAGTTGAAAAAGGCGATAAAAAAGTTTTA
CTGGAAAATGTTGAATTTATTGAAATTTAAAAATTTTAATTGTTTTTGTTTATAAAATTT
CATAAAATTTATGGTAATTTTATTGATATTTTTGGTAAACCTATGAATGATATATGCCAA
AGGCTGATAAAAAAGCACGTGTATATCAGAATGATTTTTTACTAAATTCAATAAAAATTT
TTAGGGTTCTGCACTTGCATGTAACTTGATTGGTGACTTGACTAAATGCATTCAAGTTGA
CTTAGGAAAATTTCTCTATTTTATTCAGAATTCATTCAATTTGAACAAAATTTTGCAAAT
TTAAAGACTATTGACTTTCATACAAATATGCAAAATTTCAACGAGATTAAAGAAAATCTG
AATGAAAAAAAGAAATTTTTTGTAAGTCAACTTGCTTATATTAAGTCAAGTCACTAGTCA
AGTATGCAAGTCAAGTGTCGAACCCTAAAAAATTACTTGAAATTT

>g16912.t6 Gene=g16912 Length=274
MGKIAFANVVSDIYSCGVADIDEVKIILSMPDELNEEQQQQVANDLISGFRESAKLIKCR
LTLESININPWCMIGGIATSICTKDELVFPTGALPGDAIILTKPLGVQLATNAKIWLDEN
SESWKKLSQHLTEDDVKESYEKALKSMVTLNHLGAKLMQKYKAHCATDVTGFGIIGHAEN
LIEFQEQNVNFVINKMPLIKHVKKMSEILNRTQKMLNGKMVETSGGLFLCLPSENAQAFC
DDFFSSSGDACWIIGRVEKGDKKVLLENVEFIEI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g16912.t6 Gene3D G3DSA:3.30.1330.10 - 1 87 0
4 g16912.t6 Gene3D G3DSA:3.90.650.10 - 88 273 0
2 g16912.t6 PANTHER PTHR10256 SELENIDE, WATER DIKINASE 1 269 0
1 g16912.t6 Pfam PF02769 AIR synthase related protein, C-terminal domain 95 264 0
3 g16912.t6 SUPERFAMILY SSF56042 PurM C-terminal domain-like 89 265 0
6 g16912.t6 TIGRFAM TIGR00476 selD: selenide, water dikinase 1 214 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