Gene loci information

Transcript annotation

  • This transcript has been annotated as Ecdysone receptor.

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_1 g10955 g10955.t5 isoform g10955.t5 13000236 13004105
chr_1 g10955 g10955.t5 exon g10955.t5.exon1 13000236 13000478
chr_1 g10955 g10955.t5 cds g10955.t5.CDS1 13000237 13000478
chr_1 g10955 g10955.t5 exon g10955.t5.exon2 13000537 13000820
chr_1 g10955 g10955.t5 cds g10955.t5.CDS2 13000537 13000820
chr_1 g10955 g10955.t5 exon g10955.t5.exon3 13000879 13001344
chr_1 g10955 g10955.t5 cds g10955.t5.CDS3 13000879 13001000
chr_1 g10955 g10955.t5 exon g10955.t5.exon4 13003819 13004105
chr_1 g10955 g10955.t5 TSS g10955.t5 13004104 13004104
chr_1 g10955 g10955.t5 TTS g10955.t5 NA NA

Sequences

>g10955.t5 Gene=g10955 Length=1280
ACAGTGTTTTTTCGCTTTTACAATTTTACAAGTGCTCGATATTAAACGCATAGTTATTTC
ACATATTTCGTGTTATTATTGCCTAAAACATTATTATGATTGTTCATAAGGACTAAAAGA
AGTGCAAAAGTGTCAAGTTTGATTTTGATAGACATTAAAAATATGTTCATTGTAGCACTA
TAGCGTCCGTATAATTTCTACTATTTTCTATGAAAATGAAACGCATCGAAGCGTTTAAAA
AGTGATAAATAAGGAGCAAATTACGCAAGGATCTTGTGCATCTAACTCTTGAACCATCTC
TCTCAAATACTCGCATACACACAATCGTCTATCTATCGCGTAGTCGTCCTCATTACAACA
TCTAAAATAGAACGAAAGTGAAGCGGCGGCAACAGACAGCATATTTTCCAGAACATCTCT
CCTTTTTACCCCAGACATAGGGAGGGAAGAAGTTAAAACAAAAGCAATTTTGTTTGCAGA
TAAATAACAATAAAATACAAGAAGAAATCTAGAAAGAAAAAAAAACCTCGAGAACAAAGT
CTGTTGATTCCCAAGTGTCTCTTGTTCTTATCCCTCCACTGGTTCTCTAGAAGAAGACAT
TTATGTTTTACTAAGGTGGTGTTGGATAGACATGAAGACAGAAAATCTAATTGTAACAAC
AGTAAAAGTTGAACCATTGAATTATGCTGCTACACAATCTTATGGTGAAAATAACATTTA
TGGCGGTGCAGCTAAGAAACAACGATTAGAAAGTGATGAATGGATGAATCAATCAAATAT
GAATCTCGAATCTTCCAATATGAATCATAACACAATTAGTGGCTTTTCATCGTCACCAGA
TAACTACGAGGCATATAGCCCAAATGGTAAAATGGGAATGGATGATAACAACATGAGCTC
ACATTTGAGTGATTGCCTCGACTCAAAAAAGTCCAAAAAAGGACCCGTTCCAAGACAACA
GGAAGAGTTGTGCCTCGTTTGTGGAGATCGTGCCTCGGGATATCATTATAACGCGTTGAC
GTGTGAAGGGTGCAAAGGATTTTTCCGACGTAGTGTAACTAAAAATGCTGTTTATTGTTG
TAAATTTGGTCATGAATGTGAAATGGATATGTATATGAGACGAAAGTGCCAGGAGTGTCG
ATTAAAAAAATGTTTGGCTGTGGGTATGCGACCAGAATGCGTTGTACCAGAGAATCAATG
TGCTATTAAGCGAAAAGAGAAAAAAGCACAGAAAGAAAAGGACAAGGACAAAGGAGTTGG
AGGCGGTGGTGGTGGTGCAA

>g10955.t5 Gene=g10955 Length=216
MKTENLIVTTVKVEPLNYAATQSYGENNIYGGAAKKQRLESDEWMNQSNMNLESSNMNHN
TISGFSSSPDNYEAYSPNGKMGMDDNNMSSHLSDCLDSKKSKKGPVPRQQEELCLVCGDR
ASGYHYNALTCEGCKGFFRRSVTKNAVYCCKFGHECEMDMYMRRKCQECRLKKCLAVGMR
PECVVPENQCAIKRKEKKAQKEKDKDKGVGGGGGGA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g10955.t5 CDD cd07161 NR_DBD_EcR 111 201 5.48035E-56
11 g10955.t5 Gene3D G3DSA:3.30.50.10 - 106 189 1.2E-32
15 g10955.t5 MobiDBLite mobidb-lite consensus disorder prediction 194 209 -
16 g10955.t5 MobiDBLite mobidb-lite consensus disorder prediction 194 216 -
2 g10955.t5 PANTHER PTHR48092:SF9 ECDYSONE RECEPTOR-LIKE PROTEIN 27 207 4.5E-62
3 g10955.t5 PANTHER PTHR48092 KNIRPS-RELATED PROTEIN-RELATED 27 207 4.5E-62
8 g10955.t5 PRINTS PR01283 Ecdysteroid receptor (1H nuclear receptor) signature 102 113 2.8E-7
4 g10955.t5 PRINTS PR00047 C4-type steroid receptor zinc finger signature 114 130 6.4E-20
7 g10955.t5 PRINTS PR00047 C4-type steroid receptor zinc finger signature 130 145 6.4E-20
5 g10955.t5 PRINTS PR00047 C4-type steroid receptor zinc finger signature 163 171 6.4E-20
6 g10955.t5 PRINTS PR00047 C4-type steroid receptor zinc finger signature 171 179 6.4E-20
9 g10955.t5 PRINTS PR01283 Ecdysteroid receptor (1H nuclear receptor) signature 180 189 2.8E-7
1 g10955.t5 Pfam PF00105 Zinc finger, C4 type (two domains) 113 180 6.2E-30
14 g10955.t5 ProSitePatterns PS00031 Nuclear hormones receptors DNA-binding region signature. 114 140 -
17 g10955.t5 ProSiteProfiles PS51030 Nuclear hormone receptors DNA-binding domain profile. 111 186 19.432
13 g10955.t5 SMART SM00399 c4gold 111 182 2.8E-37
10 g10955.t5 SUPERFAMILY SSF57716 Glucocorticoid receptor-like (DNA-binding domain) 112 195 1.63E-28

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:0005634 nucleus CC
GO:0003677 DNA binding MF
GO:0035100 ecdysone binding MF
GO:0006355 regulation of transcription, DNA-templated BP
GO:0004879 nuclear receptor activity MF
GO:0035076 ecdysone receptor-mediated signaling pathway BP
GO:0043565 sequence-specific DNA binding MF
GO:0008270 zinc ion binding MF
GO:0003700 DNA-binding transcription factor activity MF

KEGG

Orthology

Pathway

This gene does not belong to any 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