General information for g7582.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Homeobox protein orthopedia.
Parent gene
- The parent gene g7582 is located on chr_2: 24680078..24697006 (+ 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_2 | g7582 | g7582.t3 | TSS | g7582.t3 | 24679429 | 24679429 |
| chr_2 | g7582 | g7582.t3 | isoform | g7582.t3 | 24680078 | 24697006 |
| chr_2 | g7582 | g7582.t3 | exon | g7582.t3.exon1 | 24680078 | 24680111 |
| chr_2 | g7582 | g7582.t3 | cds | g7582.t3.CDS1 | 24680078 | 24680111 |
| chr_2 | g7582 | g7582.t3 | exon | g7582.t3.exon2 | 24685259 | 24685428 |
| chr_2 | g7582 | g7582.t3 | cds | g7582.t3.CDS2 | 24685259 | 24685428 |
| chr_2 | g7582 | g7582.t3 | exon | g7582.t3.exon3 | 24685528 | 24685603 |
| chr_2 | g7582 | g7582.t3 | cds | g7582.t3.CDS3 | 24685528 | 24685603 |
| chr_2 | g7582 | g7582.t3 | exon | g7582.t3.exon4 | 24685933 | 24685991 |
| chr_2 | g7582 | g7582.t3 | cds | g7582.t3.CDS4 | 24685933 | 24685991 |
| chr_2 | g7582 | g7582.t3 | exon | g7582.t3.exon5 | 24696911 | 24696922 |
| chr_2 | g7582 | g7582.t3 | cds | g7582.t3.CDS5 | 24696911 | 24696922 |
| chr_2 | g7582 | g7582.t3 | exon | g7582.t3.exon6 | 24696986 | 24697006 |
| chr_2 | g7582 | g7582.t3 | cds | g7582.t3.CDS6 | 24696986 | 24697006 |
| chr_2 | g7582 | g7582.t3 | TTS | g7582.t3 | NA | NA |
Sequences
>g7582.t3 Gene=g7582 Length=372
ATGCTGAATAATCTCAGCACATCAGTGATTGGAGGAAGCCAAAACCAAAAAGATTGTGAT
TTACCTAAAACGACTGTCTTGCATGGATCAAATAGCTTTGGTCAATTGCAAAGTCCAACA
ACGAACGTATCTGACACAACAAACAACACACGATTGCATGTTTCGAGCGGACTCTGTGAC
TCGCACAGCATGCATCAAGATCAAAAACGACATAGAACACGATTCACGCCAGCACAGCTG
AATGAGCTCGAAAGGTGCTTCGGAAAGACACACTATCCAGATATTTTTATGCGTGAGGAG
ATTGCTATGAGAATTGGATTAACAGAATCAAGAGTACAAGTTTGGTTCCAAAATTTTATT
AACTGTGATTAA
>g7582.t3 Gene=g7582 Length=123
MLNNLSTSVIGGSQNQKDCDLPKTTVLHGSNSFGQLQSPTTNVSDTTNNTRLHVSSGLCD
SHSMHQDQKRHRTRFTPAQLNELERCFGKTHYPDIFMREEIAMRIGLTESRVQVWFQNFI
NCD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7582.t3 | CDD | cd00086 | homeodomain | 69 | 118 | 0.000 |
| 5 | g7582.t3 | Gene3D | G3DSA:1.10.10.60 | - | 58 | 119 | 0.000 |
| 2 | g7582.t3 | PANTHER | PTHR46770 | HOMEOBOX PROTEIN ORTHOPEDIA | 48 | 118 | 0.000 |
| 1 | g7582.t3 | Pfam | PF00046 | Homeodomain | 69 | 118 | 0.000 |
| 6 | g7582.t3 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 66 | 118 | 16.147 |
| 4 | g7582.t3 | SMART | SM00389 | HOX_1 | 68 | 122 | 0.000 |
| 3 | g7582.t3 | SUPERFAMILY | SSF46689 | Homeodomain-like | 61 | 118 | 0.000 |
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:0003677 | DNA binding | MF |
KEGG
Orthology
- This transcript has been annotated with K24901 (homeobox protein orthopedia)
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. There were no conditions that were differentially expressed