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.t7 isoform g5885.t7 12585866 12592556
chr_2 g5885 g5885.t7 exon g5885.t7.exon1 12585866 12586886
chr_2 g5885 g5885.t7 cds g5885.t7.CDS1 12586568 12586886
chr_2 g5885 g5885.t7 exon g5885.t7.exon2 12587023 12587067
chr_2 g5885 g5885.t7 cds g5885.t7.CDS2 12587023 12587067
chr_2 g5885 g5885.t7 exon g5885.t7.exon3 12587120 12587228
chr_2 g5885 g5885.t7 cds g5885.t7.CDS3 12587120 12587228
chr_2 g5885 g5885.t7 exon g5885.t7.exon4 12587363 12587488
chr_2 g5885 g5885.t7 cds g5885.t7.CDS4 12587363 12587488
chr_2 g5885 g5885.t7 exon g5885.t7.exon5 12592133 12592556
chr_2 g5885 g5885.t7 cds g5885.t7.CDS5 12592133 12592556
chr_2 g5885 g5885.t7 TSS g5885.t7 12592869 12592869
chr_2 g5885 g5885.t7 TTS g5885.t7 NA NA

Sequences

>g5885.t7 Gene=g5885 Length=1725
ATGCAAAGAAATGACAGTGAAATAGTGATAAACGATGATGATAGTGAAAGTACAAGCATT
GAATCTCTTTTAGTGCAAAAATATGAGTCACCATCAAATAGTGGTGGCAGTGAGGTTGTT
GAAAGTAGTGCGCAGGATGAGAATGATGAAGTCATTTTTGTGCCAAATAATCCGACAACA
TGGTCGGAAAAGCATATTGAAACATGGGTTAAATGGGCATCAGATCAATTTGAAATTAAA
CCGCCATTGGATGTTTCGCGCTTTCCAAAAAGTGGTGCAGAATTGGCAAAATTTACTAAA
GCAGATTTCTTTATCATCTGCGGATCATTCGAGGGCGGTAGAATGGTTATGGATCATTTT
AAATATATGATGGAAAATGTTGGTGAAAGTGTCGAAGAAACGCTCCTTACTGATGGTGAA
CCAGATCCGTATCAACTTTTAAATGCCACGTCGCGTTTGGTTAATTCGGGATCTGGGCAG
ATACAATTATGGCAATTTTTGTTAGAGCTTCTCGCTGATTCGTCGAATTCTGATTTTATA
AAGTGGGAGGGAACTGCTGGTGAATTTAAATTAATCGATCCAGATGAGGTGGCGAGACGA
TGGGGTGTTAAGAAAAATAAAACAAATATGAATTATGATAAACTAAGTCGTGCATTGAGA
TATTATTATGATAAATCAATCATGACGAAAGTACATGGAAAAAGGTTTGACTTTCATGGA
TTAATGGCAGCTTGTCATGCACAAGCACAAGGATGTGATTCAACAAGTATGCTTCCAAAA
TACCCTCCACATCTCCTTATGCCAAATGATTTTTCAAGTTATGCAAGCACATCGACTGCC
ATTCCTACAAGTACAAATCAAGTATCAGCAGCATTGTCATCATCTTTCAAACCAGTACAA
CCAATCATTACTCCTCATGCAACTCCTTCTACTTCTTCATCATCGTCATCACCATCGACA
GTGGCACAAACACCAAACACTGAAAGAATACCTGGATGGCCATATTTACCCTCAAACTTT
TAAACAATTGAAATCTCAAATAATTTGTAAATGACATCGTTTTAATTGTCAGCATATAAA
AGGCTATTCTGATCTCAAATTGTGAATTTATTATTATTTTTCCTTTAATTTCAGTCCCTT
TTCCTTTTCTATTGTTTCAATTTTCTGTTCTTTCCTCCAGTGAATTACATTTTTTTATAC
AAACATCACATGAATAATTTTTATACGTAAGTCTGTGTAGCAATAATTAAAACTTTTTTT
AATTTTAAAAATACATTCTTAATGAAGATATTGATACCTCAGCTGTTAGATAATAAGAAG
AACAATTTAAATTTAAATCAAATGCTCAAAACTATAAAAAAAGTTCATGTGACAAATCTC
TTTATGTCTCTTCTTTTAGTGTTGAGAATATGAAAGAATGTTGTAATTAGATAATAAGTA
GATGTTTTTTGTAATTATTCAAATCCTAATCAAATTATCTTAATATAATGATTAGAAATA
AATCAGTGAATTAATAAAAGAACATGTTTAAAAGAAATATGCATTTTTATGCGAAACGTT
TTCAGAATCGGTAAAATGAGAAACGCTACTCAAATAAAACATGTTGTGCAACATTTTCTT
CCCTCTTTTTTGTTACGTCTCATAGAGTCTCATAAACATACTTTGTGCATGACACATTTA
ACTGAAATTTTACAACGGTAAAGAAGAAAACTATTGAATATTATT

>g5885.t7 Gene=g5885 Length=340
MQRNDSEIVINDDDSESTSIESLLVQKYESPSNSGGSEVVESSAQDENDEVIFVPNNPTT
WSEKHIETWVKWASDQFEIKPPLDVSRFPKSGAELAKFTKADFFIICGSFEGGRMVMDHF
KYMMENVGESVEETLLTDGEPDPYQLLNATSRLVNSGSGQIQLWQFLLELLADSSNSDFI
KWEGTAGEFKLIDPDEVARRWGVKKNKTNMNYDKLSRALRYYYDKSIMTKVHGKRFDFHG
LMAACHAQAQGCDSTSMLPKYPPHLLMPNDFSSYASTSTAIPTSTNQVSAALSSSFKPVQ
PIITPHATPSTSSSSSSPSTVAQTPNTERIPGWPYLPSNF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g5885.t7 Gene3D G3DSA:1.10.150.50 Transcription Factor 34 126 2.5E-15
11 g5885.t7 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 127 251 6.3E-43
18 g5885.t7 MobiDBLite mobidb-lite consensus disorder prediction 28 48 -
19 g5885.t7 MobiDBLite mobidb-lite consensus disorder prediction 28 42 -
17 g5885.t7 MobiDBLite mobidb-lite consensus disorder prediction 306 327 -
20 g5885.t7 MobiDBLite mobidb-lite consensus disorder prediction 306 328 -
3 g5885.t7 PANTHER PTHR11849 ETS 26 338 7.2E-87
4 g5885.t7 PANTHER PTHR11849:SF295 DNA-BINDING PROTEIN D-ETS-6-LIKE PROTEIN 26 338 7.2E-87
7 g5885.t7 PRINTS PR00454 ETS domain signature 161 174 9.7E-26
5 g5885.t7 PRINTS PR00454 ETS domain signature 185 203 9.7E-26
6 g5885.t7 PRINTS PR00454 ETS domain signature 204 222 9.7E-26
8 g5885.t7 PRINTS PR00454 ETS domain signature 223 241 9.7E-26
1 g5885.t7 Pfam PF02198 Sterile alpha motif (SAM)/Pointed domain 52 123 2.1E-10
2 g5885.t7 Pfam PF00178 Ets-domain 162 238 1.3E-31
13 g5885.t7 ProSitePatterns PS00345 Ets-domain signature 1. 163 171 -
14 g5885.t7 ProSitePatterns PS00346 Ets-domain signature 2. 207 222 -
21 g5885.t7 ProSiteProfiles PS51433 Pointed (PNT) domain profile. 40 127 27.047
22 g5885.t7 ProSiteProfiles PS50061 Ets-domain profile. 161 241 41.213
15 g5885.t7 SMART SM00251 SAM2_3 41 127 0.0089
16 g5885.t7 SMART SM00413 etsneu2 160 241 2.9E-50
9 g5885.t7 SUPERFAMILY SSF47769 SAM/Pointed domain 43 123 1.75E-14
10 g5885.t7 SUPERFAMILY SSF46785 Winged helix DNA-binding domain 158 284 8.44E-43

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5885/g5885.t7; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5885.t7.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. There were no conditions that were differentially expressed