Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t9 isoform g5885.t9 12585866 12592869
chr_2 g5885 g5885.t9 exon g5885.t9.exon1 12585866 12586954
chr_2 g5885 g5885.t9 TTS g5885.t9 12586057 12586057
chr_2 g5885 g5885.t9 cds g5885.t9.CDS1 12586939 12586954
chr_2 g5885 g5885.t9 exon g5885.t9.exon2 12587120 12587228
chr_2 g5885 g5885.t9 cds g5885.t9.CDS2 12587120 12587228
chr_2 g5885 g5885.t9 exon g5885.t9.exon3 12587363 12587488
chr_2 g5885 g5885.t9 cds g5885.t9.CDS3 12587363 12587488
chr_2 g5885 g5885.t9 exon g5885.t9.exon4 12592133 12592869
chr_2 g5885 g5885.t9 cds g5885.t9.CDS4 12592133 12592556
chr_2 g5885 g5885.t9 TSS g5885.t9 12592869 12592869

Sequences

>g5885.t9 Gene=g5885 Length=2061
AGTTTTGTGCAAAAATTTTCATTAGCTGGTTCGTAGGCTCATCGCTGCGTAGTAAAAATT
AAATTTCATTTTGTTAAGTCTTGCCTGCGAATTTATTGGCGAAAAAATATTTATTGTTAT
AACAAAGAAAGCAAAATAAATTTATTAGAGCTTTTAATAAAAATGAATGTGATAATGAAT
ATCGATGATAATACGAAATATTGTGAAATTTTCTAGAAATAATTTTTCTGTTTGATATTT
TCTTTGTGAGAATGGAAAAAATAAAAAGGGTAACAAAATGTAGACAATTAAATTATAATC
AGATGCCTTCAAGATGCAAAGAAATGACAGTGAAATAGTGATAAACGATGATGATAGTGA
AAGTACAAGCATTGAATCTCTTTTAGTGCAAAAATATGAGTCACCATCAAATAGTGGTGG
CAGTGAGGTTGTTGAAAGTAGTGCGCAGGATGAGAATGATGAAGTCATTTTTGTGCCAAA
TAATCCGACAACATGGTCGGAAAAGCATATTGAAACATGGGTTAAATGGGCATCAGATCA
ATTTGAAATTAAACCGCCATTGGATGTTTCGCGCTTTCCAAAAAGTGGTGCAGAATTGGC
AAAATTTACTAAAGCAGATTTCTTTATCATCTGCGGATCATTCGAGGGCGGTAGAATGGT
TATGGATCATTTTAAATATATGATGGAAAATGTTGGTGAAAGTGTCGAAGAAACGCTCCT
TACTGATGGTGAACCAGATCCGTATCAACTTTTAAATGCCACGTCGCGTTTGGTTAATTC
GGGATCTGGGCAGATACAATTATGGCAATTTTTGTTAGAGCTTCTCGCTGATTCGTCGAA
TTCTGATTTTATAAAGTGGGAGGGAACTGCTGGTGAATTTAAATTAATCGATCCAGATGA
GGTGGCGAGACGATGGGGTGTTAAGAAAAATAAAACAAATATGAATTATGATAAACTAAG
TCGTGCATTGAGGTACGCTTATAGGTAAGAAATGACGTCTATTTTCTAATGAATAAATAA
TTATTTATAAATTTAAATAGGTTTGACTTTCATGGATTAATGGCAGCTTGTCATGCACAA
GCACAAGGATGTGATTCAACAAGTATGCTTCCAAAATACCCTCCACATCTCCTTATGCCA
AATGATTTTTCAAGTTATGCAAGCACATCGACTGCCATTCCTACAAGTACAAATCAAGTA
TCAGCAGCATTGTCATCATCTTTCAAACCAGTACAACCAATCATTACTCCTCATGCAACT
CCTTCTACTTCTTCATCATCGTCATCACCATCGACAGTGGCACAAACACCAAACACTGAA
AGAATACCTGGATGGCCATATTTACCCTCAAACTTTTAAACAATTGAAATCTCAAATAAT
TTGTAAATGACATCGTTTTAATTGTCAGCATATAAAAGGCTATTCTGATCTCAAATTGTG
AATTTATTATTATTTTTCCTTTAATTTCAGTCCCTTTTCCTTTTCTATTGTTTCAATTTT
CTGTTCTTTCCTCCAGTGAATTACATTTTTTTATACAAACATCACATGAATAATTTTTAT
ACGTAAGTCTGTGTAGCAATAATTAAAACTTTTTTTAATTTTAAAAATACATTCTTAATG
AAGATATTGATACCTCAGCTGTTAGATAATAAGAAGAACAATTTAAATTTAAATCAAATG
CTCAAAACTATAAAAAAAGTTCATGTGACAAATCTCTTTATGTCTCTTCTTTTAGTGTTG
AGAATATGAAAGAATGTTGTAATTAGATAATAAGTAGATGTTTTTTGTAATTATTCAAAT
CCTAATCAAATTATCTTAATATAATGATTAGAAATAAATCAGTGAATTAATAAAAGAACA
TGTTTAAAAGAAATATGCATTTTTATGCGAAACGTTTTCAGAATCGGTAAAATGAGAAAC
GCTACTCAAATAAAACATGTTGTGCAACATTTTCTTCCCTCTTTTTTGTTACGTCTCATA
GAGTCTCATAAACATACTTTGTGCATGACACATTTAACTGAAATTTTACAACGGTAAAGA
AGAAAACTATTGAATATTATT

>g5885.t9 Gene=g5885 Length=224
MQRNDSEIVINDDDSESTSIESLLVQKYESPSNSGGSEVVESSAQDENDEVIFVPNNPTT
WSEKHIETWVKWASDQFEIKPPLDVSRFPKSGAELAKFTKADFFIICGSFEGGRMVMDHF
KYMMENVGESVEETLLTDGEPDPYQLLNATSRLVNSGSGQIQLWQFLLELLADSSNSDFI
KWEGTAGEFKLIDPDEVARRWGVKKNKTNMNYDKLSRALRYAYR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g5885.t9 Gene3D G3DSA:1.10.150.50 Transcription Factor 34 126 1.1E-15
10 g5885.t9 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 127 224 1.3E-34
15 g5885.t9 MobiDBLite mobidb-lite consensus disorder prediction 29 48 -
3 g5885.t9 PANTHER PTHR11849 ETS 26 223 1.6E-59
4 g5885.t9 PANTHER PTHR11849:SF295 DNA-BINDING PROTEIN D-ETS-6-LIKE PROTEIN 26 223 1.6E-59
7 g5885.t9 PRINTS PR00454 ETS domain signature 161 174 3.7E-19
5 g5885.t9 PRINTS PR00454 ETS domain signature 185 203 3.7E-19
6 g5885.t9 PRINTS PR00454 ETS domain signature 204 222 3.7E-19
1 g5885.t9 Pfam PF02198 Sterile alpha motif (SAM)/Pointed domain 52 123 9.3E-11
2 g5885.t9 Pfam PF00178 Ets-domain 162 224 8.0E-25
12 g5885.t9 ProSitePatterns PS00345 Ets-domain signature 1. 163 171 -
16 g5885.t9 ProSiteProfiles PS51433 Pointed (PNT) domain profile. 40 127 27.047
17 g5885.t9 ProSiteProfiles PS50061 Ets-domain profile. 161 224 34.54
13 g5885.t9 SMART SM00251 SAM2_3 41 127 0.0089
14 g5885.t9 SMART SM00413 etsneu2 160 224 2.7E-29
8 g5885.t9 SUPERFAMILY SSF47769 SAM/Pointed domain 42 123 7.18E-15
9 g5885.t9 SUPERFAMILY SSF46785 Winged helix DNA-binding domain 158 224 7.08E-32

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5885/g5885.t9; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5885.t9.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