Gene loci information

Transcript annotation

  • This transcript has been annotated as Aryl hydrocarbon receptor nuclear translocator-like protein.

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 g14012 g14012.t4 TSS g14012.t4 33981622 33981622
chr_1 g14012 g14012.t4 isoform g14012.t4 33981761 33982795
chr_1 g14012 g14012.t4 exon g14012.t4.exon1 33981761 33982795
chr_1 g14012 g14012.t4 cds g14012.t4.CDS1 33982165 33982794
chr_1 g14012 g14012.t4 TTS g14012.t4 NA NA

Sequences

>g14012.t4 Gene=g14012 Length=1035
GGTAAAATGAAAATATTTTATATTGTGGGTGGATTTTTACAAGAAAGAAATGTATAAAAA
AATTCAATGGAGGATAGTTCACAGTGAAAAACAAAGGCCCTTTAAAACTTGATTAGTTTT
ATTGCATAATCGTTATCATCGACTGCAACTGTATTCGAATAATTTTCTTCGACTTTTAAA
AGATTTCATAATGATCCATAGTAGAGTTGAAAAAATTTCTGCACTCAATAGTTGAAGTTA
CAGTTGTTGTGTATGCAGAAAATTAATTTCAAGTACATTTCTTTCTTGCTGATTAAACTT
TTTTATAATAGCCTCGCATTTTACTCAAACAAGCCAATTTGTTTCTATTTATGAATTATA
GTCGAGAGAACCATTGTGAAATTGAGAGAAGACGACGTAATAAAATGACAGCTTACATTA
CTGAACTCTCTGATATGGTGCCGACATGCAGCGCTCTTGCTCGAAAACCTGATAAACTTA
CAATTTTAAGAATGGCAGTTGCACATATGAAAGCACTTCGAGGCACAGGCAATACAAATA
CAGATGGAAGCTACAAACCATCTTTTCTAACAGATCAAGAGTTGAAGCATTTAATTTTGG
AAGCAGCTGATGGATTTCTATTTGTTGTGTCATGCGACACTGGTCGTATTATATACGTCT
CAGATTCAGTTGCACCTGTTTTGAATCACTCACAAAATGACTGGTATGGTTCATCTCTTT
TTGAATTAGTGCATCCAGACGATATTGAAAAAGTTCGTGAGCAATTATCCACACAAGAAC
CACAAAATTCTGGTCGTATTTTGGACTTAAAAACTGGAACTGTCAAAAAAGAAGGCCATC
AATCATCAATGAGATTGTGCATGGGATCACGCAGAGGCTTCATTTGTCGAATGAAAATTG
GAAATATCAATCCAGAGAACATGGCCGTTGGGCATCTTAATCGATTGAAACAACGCAATT
CTCTCGGACCTTCTAGAGATGGACAAAACTATGCAGTTGTTCATTGCACTGGATATATTA
AAAACTGGCCACCGA

>g14012.t4 Gene=g14012 Length=210
MTAYITELSDMVPTCSALARKPDKLTILRMAVAHMKALRGTGNTNTDGSYKPSFLTDQEL
KHLILEAADGFLFVVSCDTGRIIYVSDSVAPVLNHSQNDWYGSSLFELVHPDDIEKVREQ
LSTQEPQNSGRILDLKTGTVKKEGHQSSMRLCMGSRRGFICRMKIGNINPENMAVGHLNR
LKQRNSLGPSRDGQNYAVVHCTGYIKNWPP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g14012.t4 CDD cd00130 PAS 68 161 0.0000000
13 g14012.t4 Gene3D G3DSA:4.10.280.10 HLH 1 41 0.0000000
14 g14012.t4 Gene3D G3DSA:3.30.450.20 - 48 210 0.0000000
3 g14012.t4 PANTHER PTHR23042:SF6 ARYL HYDROCARBON RECEPTOR NUCLEAR TRANSLOCATOR 2 1 210 0.0000000
4 g14012.t4 PANTHER PTHR23042 CIRCADIAN PROTEIN CLOCK/ARNT/BMAL/PAS 1 210 0.0000000
9 g14012.t4 PRINTS PR00785 Nuclear translocator signature 20 40 0.0000000
10 g14012.t4 PRINTS PR00785 Nuclear translocator signature 50 73 0.0000000
6 g14012.t4 PRINTS PR00785 Nuclear translocator signature 75 94 0.0000000
8 g14012.t4 PRINTS PR00785 Nuclear translocator signature 107 125 0.0000000
5 g14012.t4 PRINTS PR00785 Nuclear translocator signature 153 166 0.0000000
7 g14012.t4 PRINTS PR00785 Nuclear translocator signature 196 210 0.0000000
2 g14012.t4 Pfam PF00010 Helix-loop-helix DNA-binding domain 4 38 0.0000070
1 g14012.t4 Pfam PF00989 PAS fold 62 164 0.0000000
17 g14012.t4 ProSiteProfiles PS50888 Myc-type, basic helix-loop-helix (bHLH) domain profile. 1 38 11.5150000
18 g14012.t4 ProSiteProfiles PS50112 PAS repeat profile. 57 128 14.3530000
16 g14012.t4 SMART SM00091 pas_2 59 126 0.0000000
12 g14012.t4 SUPERFAMILY SSF47459 HLH, helix-loop-helix DNA-binding domain 3 70 0.0000002
11 g14012.t4 SUPERFAMILY SSF55785 PYP-like sensor domain (PAS domain) 69 203 0.0000000

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:0006355 regulation of transcription, DNA-templated BP
GO:0005667 transcription regulator complex CC
GO:0005737 cytoplasm CC
GO:0003700 DNA-binding transcription factor activity MF
GO:0046983 protein dimerization 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