Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein ultraspiracle.

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 g11122 g11122.t2 TTS g11122.t2 14253663 14253663
chr_1 g11122 g11122.t2 isoform g11122.t2 14253699 14255005
chr_1 g11122 g11122.t2 exon g11122.t2.exon1 14253699 14254228
chr_1 g11122 g11122.t2 cds g11122.t2.CDS1 14253962 14254228
chr_1 g11122 g11122.t2 exon g11122.t2.exon2 14254296 14254730
chr_1 g11122 g11122.t2 cds g11122.t2.CDS2 14254296 14254730
chr_1 g11122 g11122.t2 exon g11122.t2.exon3 14254807 14255005
chr_1 g11122 g11122.t2 cds g11122.t2.CDS3 14254807 14254860
chr_1 g11122 g11122.t2 TSS g11122.t2 NA NA

Sequences

>g11122.t2 Gene=g11122 Length=1164
TTGTGAAGGCTGTAAAGGCTTTTTCAAAAGAACAGTAAGAAAGGACTTGTCATATGCATG
TCGAGAGGATCGAAATTGTGTGATTGATAAAAAACAAAGGAATCGTTGTCAATATTGTCG
TTACCAGAAATGCTTAAATTGTGGTATGAAACGAGAAGCCGTTCAAGAAGAACGACAGCG
AGGTGGAAAGTCACAAAAGAGTGGCGACGATATGAATATTTCATCAACGCCGCCTTTCGT
GAATAATGGACCTGCTCGAGAATTTACATTGGAGCGTCTAATGGAAGCAGAACAAATGAG
CGAATCAAAATGCGGGGATAAATCTATACAATATTTACGTATAGCCAGCTCTAATGCAAT
GATTCCAAATGAATACAGGGTAAAGATTAAAAATAGAAAATTTTTTCCGTGTTTATTTCT
TATAAATTTATTAACTAAAAATATTTTGATGTTTGTTTCACAGGCGCCTGTTTCATCAAT
TTGTGCAATGGTAAATAGACTGTCCTTTCAACTAATGGACTTTTGTCGACGACTGCCTCA
CTTCACAAAATTACCTCATGACGATCAGATAGAACTACTAAAACATAGTTTTAATGAATT
GCTGATAATTTCCGTTGCATACATGAGCATTCCGTATATTGAACCTGATCGACGGAATGC
CGATGGAACGCTGGAAAGACGAACAATATCGCAACAGATGTGTCTTGGACGTAATTACAC
ATTAGGCAGAAACATGGCAGTGCAAGCGGGTGTTGTGCAAATATTTGATAGAATTTTATC
GGAATTAAGTGTCAAAGTTAAAAGAATGGAAATTGATCTTACTGAACTGTGCTTACTTAA
GGCAATTATTGTCTTTAATCCAGGTAAAATTTTATATATATTTTTTAAATTTTTTGCTTA
ACTCATGTTTTATTGACAGATGTAAGAAAACTTACAGAACGCACAGATATCGATTTAGTG
CGTGCAAAAATTTACGCCTGTCTCGACGAGTACTGTCGACAGAAACATCCAACAGAAGAC
GGTCGTTTTGCTCAACTTCTACTTCGACTGCCAGCTCTCCGATCCATAAGTCTCAAGTGT
GTAGATCATTTGTTCTATTTTCAACTTATTGATGACAAACATGTTGAAGAAATTCTTGAA
GAGGAATTAGGAAGGTGCACCTAA

>g11122.t2 Gene=g11122 Length=251
MKREAVQEERQRGGKSQKSGDDMNISSTPPFVNNGPAREFTLERLMEAEQMSESKCGDKS
IQYLRIASSNAMIPNEYRVKIKNRKFFPCLFLINLLTKNILMFVSQAPVSSICAMVNRLS
FQLMDFCRRLPHFTKLPHDDQIELLKHSFNELLIISVAYMSIPYIEPDRRNADGTLERRT
ISQQMCLGRNYTLGRNMAVQAGVVQIFDRILSELSVKVKRMEIDLTELCLLKAIIVFNPG
KILYIFFKFFA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g11122.t2 Gene3D G3DSA:1.10.565.10 Retinoid X Receptor 36 241 7.1E-37
17 g11122.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 30 -
18 g11122.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 17 -
2 g11122.t2 PANTHER PTHR24083:SF103 PROTEIN ULTRASPIRACLE 1 240 3.4E-39
3 g11122.t2 PANTHER PTHR24083 NUCLEAR HORMONE RECEPTOR 1 240 3.4E-39
6 g11122.t2 PRINTS PR00545 Retinoid X receptor signature 4 17 3.8E-14
9 g11122.t2 PRINTS PR00398 Steroid hormone receptor signature 115 136 2.0E-12
8 g11122.t2 PRINTS PR00398 Steroid hormone receptor signature 136 152 2.0E-12
4 g11122.t2 PRINTS PR00545 Retinoid X receptor signature 183 208 3.8E-14
5 g11122.t2 PRINTS PR00545 Retinoid X receptor signature 209 227 3.8E-14
7 g11122.t2 PRINTS PR00398 Steroid hormone receptor signature 221 236 2.0E-12
1 g11122.t2 Pfam PF00104 Ligand-binding domain of nuclear hormone receptor 102 239 2.0E-18
12 g11122.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 85 -
14 g11122.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 104 -
13 g11122.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 105 251 -
19 g11122.t2 ProSiteProfiles PS51843 Nuclear receptor (NR) ligand-binding (LBD) domain profile. 41 251 30.122
16 g11122.t2 SMART SM00430 holi 114 249 7.0E-7
10 g11122.t2 SUPERFAMILY SSF48508 Nuclear receptor ligand-binding domain 36 240 1.31E-32
15 g11122.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -

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:0003707 steroid hormone receptor activity MF
GO:0005634 nucleus CC
GO:0003677 DNA binding MF
GO:0006355 regulation of transcription, DNA-templated BP
GO:0008270 zinc ion binding 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