Gene loci information

Transcript annotation

  • This transcript has been annotated as Histone-lysine N-methyltransferase SETMAR.

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
HiC_scaffold_67 g17687 g17687.t1 isoform g17687.t1 502 1592
HiC_scaffold_67 g17687 g17687.t1 exon g17687.t1.exon1 502 1387
HiC_scaffold_67 g17687 g17687.t1 cds g17687.t1.CDS1 502 1387
HiC_scaffold_67 g17687 g17687.t1 exon g17687.t1.exon2 1441 1592
HiC_scaffold_67 g17687 g17687.t1 cds g17687.t1.CDS2 1441 1592
HiC_scaffold_67 g17687 g17687.t1 TSS g17687.t1 NA NA
HiC_scaffold_67 g17687 g17687.t1 TTS g17687.t1 NA NA

Sequences

>g17687.t1 Gene=g17687 Length=1038
ATGGAAGAAGTTCAAAGTAGTGTTTCTCGTGATTATATTCATAATTTACTGCTTTTTGAG
TTCAAGAAAGGTAGCACAGCAGAAGGAGCTGCACGCACAATAAATGAAACTCATAGAAAA
AAAATTGTCTCGAATTCAACAGCAAAAAGATGGTTCATCAAGTTTCGCAATGGAAATGAA
TCATTGAAAAGGGTTGAAGGTAGTGGCCGAATTAGAAAATTTGATGACGATGAATTAATC
GATTTAGTTCAAAAAAATCCAACATTTACATTATCAGAATATGCACATGTTCTTGAAGTT
TGCACATCTACAGTTTTTTATAGATTAAAAAATCTAAAATTTTCATGTAAACGAAGTAAT
TGGGTGCCACATCAATTAACTGTAAAGAATTTAAATGATCGCGTTCGCATTTTTTTATCG
CTACTTGAAAAGAATAAGGCAGTGCCATTTTTAGATCATTTGGTTACTTGCGATGAAAAA
TGGATTTTGTACAAGAACGTTGTAAAACGCAATGAATGGTCTCGTGTGGGTGCTAAGCCT
AGAAATGTAGCTAAGGGTGAATTACATGGTAAGAAAGTCTTATTATCTCTTTGGTGGGAC
ATCCGTGGTGTAATTTTCTTTGAGCTATTAAAGCCTAATGAGACGATAACAGCCGAAAAA
TATTGCGCACAAATAAGTAAAGTGCATGAAGCATTGAAAACAAAACGCCCAGCTTTATTG
AATCGAAACAAAATTGTTTATCACCACGATAATGCCCGTCCACACACGGCACGCATTACA
AAAGAAAAACTAAATGAATATCAATGGACTTTAATTGAACACCCGGCTTATAGCCCAGAC
GCTGCTCCATGTGATTATTATTTGTTCAGATCATTGCAGAATGCGTTGAATAGAAAATCG
TTTAATACTCTTCATGAAATTGAACTGTTTTTGAATAATTATTTTGAATCAAAGCCGCAA
GATTATTATAAGCGAGGAATTTATAAATTACCTGGAATTTGGCAAAGTATTGTTAACAAT
AATGGTCATTATTTGTGA

>g17687.t1 Gene=g17687 Length=345
MEEVQSSVSRDYIHNLLLFEFKKGSTAEGAARTINETHRKKIVSNSTAKRWFIKFRNGNE
SLKRVEGSGRIRKFDDDELIDLVQKNPTFTLSEYAHVLEVCTSTVFYRLKNLKFSCKRSN
WVPHQLTVKNLNDRVRIFLSLLEKNKAVPFLDHLVTCDEKWILYKNVVKRNEWSRVGAKP
RNVAKGELHGKKVLLSLWWDIRGVIFFELLKPNETITAEKYCAQISKVHEALKTKRPALL
NRNKIVYHHDNARPHTARITKEKLNEYQWTLIEHPAYSPDAAPCDYYLFRSLQNALNRKS
FNTLHEIELFLNNYFESKPQDYYKRGIYKLPGIWQSIVNNNGHYL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g17687.t1 Gene3D G3DSA:1.10.10.1450 - 9 56 5.0e-07
7 g17687.t1 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 75 110 1.5e-06
6 g17687.t1 Gene3D G3DSA:3.30.420.470 - 111 345 0.0e+00
3 g17687.t1 PANTHER PTHR46060 MARINER MOS1 TRANSPOSASE-LIKE PROTEIN 11 345 0.0e+00
4 g17687.t1 PANTHER PTHR46060:SF3 - 11 345 0.0e+00
1 g17687.t1 Pfam PF17906 HTH domain in Mos1 transposase 12 59 0.0e+00
2 g17687.t1 Pfam PF01359 Transposase (partial DDE domain) 164 241 0.0e+00

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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. There were no conditions that were differentially expressed