Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative DNA-binding protein D-ETS-6.

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_2 g5885 g5885.t13 TTS g5885.t13 12586494 12586494
chr_2 g5885 g5885.t13 isoform g5885.t13 12586568 12592556
chr_2 g5885 g5885.t13 exon g5885.t13.exon1 12586568 12586886
chr_2 g5885 g5885.t13 exon g5885.t13.exon2 12586943 12587067
chr_2 g5885 g5885.t13 exon g5885.t13.exon3 12587120 12587230
chr_2 g5885 g5885.t13 cds g5885.t13.CDS1 12587205 12587230
chr_2 g5885 g5885.t13 exon g5885.t13.exon4 12587363 12587488
chr_2 g5885 g5885.t13 cds g5885.t13.CDS2 12587363 12587488
chr_2 g5885 g5885.t13 exon g5885.t13.exon5 12592133 12592556
chr_2 g5885 g5885.t13 cds g5885.t13.CDS3 12592133 12592556
chr_2 g5885 g5885.t13 TSS g5885.t13 12592869 12592869

Sequences

>g5885.t13 Gene=g5885 Length=1105
ATGCAAAGAAATGACAGTGAAATAGTGATAAACGATGATGATAGTGAAAGTACAAGCATT
GAATCTCTTTTAGTGCAAAAATATGAGTCACCATCAAATAGTGGTGGCAGTGAGGTTGTT
GAAAGTAGTGCGCAGGATGAGAATGATGAAGTCATTTTTGTGCCAAATAATCCGACAACA
TGGTCGGAAAAGCATATTGAAACATGGGTTAAATGGGCATCAGATCAATTTGAAATTAAA
CCGCCATTGGATGTTTCGCGCTTTCCAAAAAGTGGTGCAGAATTGGCAAAATTTACTAAA
GCAGATTTCTTTATCATCTGCGGATCATTCGAGGGCGGTAGAATGGTTATGGATCATTTT
AAATATATGATGGAAAATGTTGGTGAAAGTGTCGAAGAAACGCTCCTTACTGATGGTGAA
CCAGATCCGTATCAACTTTTAAATGCCACGTCGCGTTTGGTTAATTCGGGATCTGGGCAG
ATACAATTATGGCAATTTTTGTTAGAGCTTCTCGCTGATTCGTCGAATTCTGATTTTATA
AAGTGGGAGGAGGAACTGCTGGTGAATTTAAATTAATCGATCCAGATGAGGTGGCGAGAC
GATGGGGTGTTAAGAAAAATAAAACAAATATGAATTATGATAAACTAAGTCGTGCATTGA
GATATTATTATGATAAATCAATCATGACGAAAGTACATGGAAAAAGGTGAGAAGTTTTAT
TTCTTAAGAATTCACTTAATTTATTATATTTTTTATTTTTATAATCCATCTTAGGTACGC
TTATAGGTTTGACTTTCATGGATTAATGGCAGCTTGTCATGCACAAGCACAAGGATGTGA
TTCAACAAGTATGCTTCCAAAATACCCTCCACATCTCCTTATGCCAAATGATTTTTCAAG
TTATGCAAGCACATCGACTGCCATTCCTACAAGTACAAATCAAGTATCAGCAGCATTGTC
ATCATCTTTCAAACCAGTACAACCAATCATTACTCCTCATGCAACTCCTTCTACTTCTTC
ATCATCGTCATCACCATCGACAGTGGCACAAACACCAAACACTGAAAGAATACCTGGATG
GCCATATTTACCCTCAAACTTTTAA

>g5885.t13 Gene=g5885 Length=191
MQRNDSEIVINDDDSESTSIESLLVQKYESPSNSGGSEVVESSAQDENDEVIFVPNNPTT
WSEKHIETWVKWASDQFEIKPPLDVSRFPKSGAELAKFTKADFFIICGSFEGGRMVMDHF
KYMMENVGESVEETLLTDGEPDPYQLLNATSRLVNSGSGQIQLWQFLLELLADSSNSDFI
KWEEELLVNLN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g5885.t13 Gene3D G3DSA:1.10.150.50 Transcription Factor 34 125 7.4E-16
6 g5885.t13 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 126 188 1.1E-9
10 g5885.t13 MobiDBLite mobidb-lite consensus disorder prediction 29 48 -
2 g5885.t13 PANTHER PTHR11849 ETS 25 183 9.8E-28
3 g5885.t13 PANTHER PTHR11849:SF295 DNA-BINDING PROTEIN D-ETS-6-LIKE PROTEIN 25 183 9.8E-28
1 g5885.t13 Pfam PF02198 Sterile alpha motif (SAM)/Pointed domain 52 123 6.6E-11
8 g5885.t13 ProSitePatterns PS00345 Ets-domain signature 1. 163 171 -
11 g5885.t13 ProSiteProfiles PS51433 Pointed (PNT) domain profile. 40 127 27.047
12 g5885.t13 ProSiteProfiles PS50061 Ets-domain profile. 161 183 11.681
9 g5885.t13 SMART SM00251 SAM2_3 41 127 0.0089
4 g5885.t13 SUPERFAMILY SSF47769 SAM/Pointed domain 42 123 4.93E-15
5 g5885.t13 SUPERFAMILY SSF46785 Winged helix DNA-binding domain 153 185 1.73E-6

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5885/g5885.t13; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5885.t13.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0006355 regulation of transcription, DNA-templated BP
GO:0043565 sequence-specific DNA binding MF
GO:0003700 DNA-binding transcription factor activity 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