General information for g2016.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Homeobox protein homothorax.
Parent gene
- The parent gene g2016 is located on chr_3: 14403659..14459730 (+ strand)
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 | g2016 | g2016.t1 | isoform | g2016.t1 | 14403659 | 14459730 |
| chr_3 | g2016 | g2016.t1 | exon | g2016.t1.exon1 | 14403659 | 14403673 |
| chr_3 | g2016 | g2016.t1 | cds | g2016.t1.CDS1 | 14403659 | 14403673 |
| chr_3 | g2016 | g2016.t1 | exon | g2016.t1.exon2 | 14409578 | 14409813 |
| chr_3 | g2016 | g2016.t1 | cds | g2016.t1.CDS2 | 14409578 | 14409813 |
| chr_3 | g2016 | g2016.t1 | exon | g2016.t1.exon3 | 14413365 | 14413506 |
| chr_3 | g2016 | g2016.t1 | cds | g2016.t1.CDS3 | 14413365 | 14413506 |
| chr_3 | g2016 | g2016.t1 | exon | g2016.t1.exon4 | 14423466 | 14423516 |
| chr_3 | g2016 | g2016.t1 | cds | g2016.t1.CDS4 | 14423466 | 14423516 |
| chr_3 | g2016 | g2016.t1 | exon | g2016.t1.exon5 | 14424904 | 14424954 |
| chr_3 | g2016 | g2016.t1 | cds | g2016.t1.CDS5 | 14424904 | 14424954 |
| chr_3 | g2016 | g2016.t1 | exon | g2016.t1.exon6 | 14430718 | 14430903 |
| chr_3 | g2016 | g2016.t1 | cds | g2016.t1.CDS6 | 14430718 | 14430903 |
| chr_3 | g2016 | g2016.t1 | exon | g2016.t1.exon7 | 14458560 | 14458683 |
| chr_3 | g2016 | g2016.t1 | cds | g2016.t1.CDS7 | 14458560 | 14458683 |
| chr_3 | g2016 | g2016.t1 | exon | g2016.t1.exon8 | 14459618 | 14459730 |
| chr_3 | g2016 | g2016.t1 | cds | g2016.t1.CDS8 | 14459618 | 14459730 |
| chr_3 | g2016 | g2016.t1 | TSS | g2016.t1 | NA | NA |
| chr_3 | g2016 | g2016.t1 | TTS | g2016.t1 | NA | NA |
Sequences
>g2016.t1 Gene=g2016 Length=918
ATGGCTCAACCAAGGTATGACGACGGTTTGCATGGCTATATGTCCGATCCAACGGCAACT
GCAATGTACGATCCACATTCCGGACATCGTCCTGGTCTGCCAGGACTCCCACCACATCAT
TCACCGCATATGAATCATGCTGCAGCAGGCATGCATGGTTATCATGGAACACCTAGTCAT
GTATCTCAGACAACAAATCATATGGGGGGTGCCGTTCAACCAGACAAACGTGATAAAGAA
GCCATTTATGGTCATCCACTATTTCCACTATTGGCATTAATATTCGAAAAATGTGAGCTT
GCTACATGTACACCTCGAGAACCAGGCGTTGCAGGCGGCGATGTGTGTTCGTCAGATTCA
TTTAGTGAAGATGTTGCAGTTTTTAGTAAACAGATACGCCAAGAGAAACCTTATTATGTA
GCAGATCCTGAAGTTGATTCACTAATGGTACAAGCAATTCAAGTACTTCGGTTTCATCTC
TTAGAACTGGAAAAGGTCCATGAGTTATGTGACAATTTCTGTCATCGTTATATATCTTGT
TTAAAGGGTAAAATGCCAATAGATTTAGTGATTGACGAACGGGACACCACCAAACCACCG
GAACTCGGAAATGCAAATGGCGAAGGTCGAAGCAATGCAGATTCAACATCACATACAGAT
GGAGCAAGCACACCAGACGTTAGACCGCCAAGTTCATCCCTCTCATATGGTGGTGCAATG
AATGATGATGTTAGATCTCCAGGCTCAGGAAGCACACCAGGACCACTATCAGCGCAACCG
CCACCCGGTTTAGGCGAAGATCCTGCTATAAATGGTCACAATTTAACATTTAGTTATTTT
TATGGATTGCTTGCAACGCCTGCTCGTCTCTGTTTTGAATCATCGTCATCAAATTCAGCC
TCTTTCTTGCTTCAATAA
>g2016.t1 Gene=g2016 Length=305
MAQPRYDDGLHGYMSDPTATAMYDPHSGHRPGLPGLPPHHSPHMNHAAAGMHGYHGTPSH
VSQTTNHMGGAVQPDKRDKEAIYGHPLFPLLALIFEKCELATCTPREPGVAGGDVCSSDS
FSEDVAVFSKQIRQEKPYYVADPEVDSLMVQAIQVLRFHLLELEKVHELCDNFCHRYISC
LKGKMPIDLVIDERDTTKPPELGNANGEGRSNADSTSHTDGASTPDVRPPSSSLSYGGAM
NDDVRSPGSGSTPGPLSAQPPPGLGEDPAINGHNLTFSYFYGLLATPARLCFESSSSNSA
SFLLQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2016.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 196 | 234 | - |
| 4 | g2016.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 208 | 234 | - |
| 2 | g2016.t1 | PANTHER | PTHR11850:SF47 | HOMEOBOX PROTEIN MEIS2 | 17 | 232 | 8.6E-82 |
| 3 | g2016.t1 | PANTHER | PTHR11850 | HOMEOBOX PROTEIN TRANSCRIPTION FACTORS | 17 | 232 | 8.6E-82 |
| 1 | g2016.t1 | Pfam | PF16493 | N-terminal of Homeobox Meis and PKNOX1 | 112 | 196 | 3.9E-44 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K16672 (homeobox protein homothorax)
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. There were no conditions that were differentially expressed