Gene loci information

Transcript annotation

  • This transcript has been annotated as DNA-binding protein Ewg.

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_3 g3900 g3900.t2 TTS g3900.t2 28714001 28714001
chr_3 g3900 g3900.t2 isoform g3900.t2 28714266 28718907
chr_3 g3900 g3900.t2 exon g3900.t2.exon1 28714266 28714412
chr_3 g3900 g3900.t2 cds g3900.t2.CDS1 28714266 28714412
chr_3 g3900 g3900.t2 exon g3900.t2.exon2 28714475 28714528
chr_3 g3900 g3900.t2 cds g3900.t2.CDS2 28714475 28714528
chr_3 g3900 g3900.t2 exon g3900.t2.exon3 28715644 28715753
chr_3 g3900 g3900.t2 cds g3900.t2.CDS3 28715644 28715753
chr_3 g3900 g3900.t2 exon g3900.t2.exon4 28715811 28715946
chr_3 g3900 g3900.t2 cds g3900.t2.CDS4 28715811 28715946
chr_3 g3900 g3900.t2 exon g3900.t2.exon5 28716009 28716143
chr_3 g3900 g3900.t2 cds g3900.t2.CDS5 28716009 28716143
chr_3 g3900 g3900.t2 exon g3900.t2.exon6 28717933 28718174
chr_3 g3900 g3900.t2 cds g3900.t2.CDS6 28717933 28718174
chr_3 g3900 g3900.t2 exon g3900.t2.exon7 28718240 28718552
chr_3 g3900 g3900.t2 cds g3900.t2.CDS7 28718240 28718552
chr_3 g3900 g3900.t2 exon g3900.t2.exon8 28718614 28718907
chr_3 g3900 g3900.t2 cds g3900.t2.CDS8 28718614 28718907
chr_3 g3900 g3900.t2 TSS g3900.t2 NA NA

Sequences

>g3900.t2 Gene=g3900 Length=1431
ATGAATACCATAGCAACGACAGAGACTATAGAGATGGTTGATGAAGGAGGACTTACTGAT
GATTCAGAGTCTGATTTTGATAGTCGACCAAGCAGCCCAGACGAGGGAGATGGTAATTTA
CTAACTGAAGCTATGGAAAATGAAGTCACAGCACAACTTGTCAATGCTGGTGTCGTTGGA
ATAGCTGCTGCAGCTGCCATTACATCTTCAAAGAAAAGAAAACGTCCTCACTCGTTTGAA
ACAAATCCTTCCATCAGAAAACGACAACAAAATCGACTGCTAAGGAAATTGAGGCAAACA
ATATTTGAGTATGCAACACGAGTTGGTCAGCAAGCAGTCGTATTAGTTGCAACACCTGGT
AAACCGAACAATATTTACAAAGTTTTTGGCGCGAAACCTCTCGAAGATGTTATTAAAAAT
TTGCGCACGATGGTAATGGACGAACTCGAAACGGCATTAGCTCAACAAGCACCACCAAAA
GTACAGGAAGATCCATCACTGTTCGAATTGCCCCCTCTGATTATTGATGGGATTCCTACA
CCAGTCGAGAAGATGACACAAGCTCAATTGAGAGCATTTATTCCACTTATGCTTAAATAT
TCAACAGGACGAGGTAAACCAGGTTGGGGCCGTGATTCCACGCGGCCAGAATGGTGGCCT
AAAGAACTTCCATGGGCAAATGTGAGAATGGACGCACGAACAGAAGAAGAAAAACAAAAA
ATTAGCTGGACACATGCATTGCGAAAAATTGTTATAAACTGTTACAAATATCATGGACGA
GAAGACTTATTACCAGCATTCTCTGAAGAAGATGAAAAAGCAAATGCAATCGCAACTGCC
AATGCAAATTATCAAACAGTCTTACAAACTAATCCAGATGGAACATTCTCATTAATTCAA
GTTGATCCAAGTACATTATCAAATAATCCATCGATAATCACTTTACCTGATGGTACAACA
GCTCAAGTTCAAGGTGTTGCTACTTTGCATACACAAAGTGATGGCACAACTGTCCATACA
GTCCAAGCTCTTGATGGTCAAACAGAAAATATGCAAGTAGATCTCTCAGAAGCTCTTGCT
CAAGATGGTCAACTAATAATCACAAATGAAGATGGAAATGGCCCATATCCAGTGTTTGTT
TCTCTACCAGTTACCGCACAAATGTATCATTCACTCGTGCAGCAACAAATTCCAAATTCT
GACAATACAGTTTGTGTGACTCCTATGCAGATGGAAAGCAGTGAACCAATGGAAACAATT
ACGCTCAATTCTTCAAATCTTAAGCTCTTCGACTCTTCAGCATCGAATATGCCTCAAGTC
ATGATTCAAGGCGCTAATGGCGAACTAAAAATGTTAAGTCTTGCTGATCTCAAATCATTG
GGTGTGAATTTAATTGAAGATGTCAAGTCGGAAGACCAAATAATGGGCTGA

>g3900.t2 Gene=g3900 Length=476
MNTIATTETIEMVDEGGLTDDSESDFDSRPSSPDEGDGNLLTEAMENEVTAQLVNAGVVG
IAAAAAITSSKKRKRPHSFETNPSIRKRQQNRLLRKLRQTIFEYATRVGQQAVVLVATPG
KPNNIYKVFGAKPLEDVIKNLRTMVMDELETALAQQAPPKVQEDPSLFELPPLIIDGIPT
PVEKMTQAQLRAFIPLMLKYSTGRGKPGWGRDSTRPEWWPKELPWANVRMDARTEEEKQK
ISWTHALRKIVINCYKYHGREDLLPAFSEEDEKANAIATANANYQTVLQTNPDGTFSLIQ
VDPSTLSNNPSIITLPDGTTAQVQGVATLHTQSDGTTVHTVQALDGQTENMQVDLSEALA
QDGQLIITNEDGNGPYPVFVSLPVTAQMYHSLVQQQIPNSDNTVCVTPMQMESSEPMETI
TLNSSNLKLFDSSASNMPQVMIQGANGELKMLSLADLKSLGVNLIEDVKSEDQIMG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3900.t2 MobiDBLite mobidb-lite consensus disorder prediction 14 35 -
5 g3900.t2 MobiDBLite mobidb-lite consensus disorder prediction 70 89 -
3 g3900.t2 PANTHER PTHR20338 NUCLEAR RESPIRATORY FACTOR 1 22 460 1.5E-166
4 g3900.t2 PANTHER PTHR20338:SF8 NUCLEAR RESPIRATORY FACTOR 1 22 460 1.5E-166
1 g3900.t2 Pfam PF10491 NLS-binding and DNA-binding and dimerisation domains of Nrf1 57 267 6.6E-113
2 g3900.t2 Pfam PF10492 Nrf1 activator activation site binding domain 380 447 2.2E-7

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:0006357 regulation of transcription by RNA polymerase II BP
GO:0003700 DNA-binding transcription factor activity MF

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.

Raw TPM values