General information for g13703.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Homeotic protein ocelliless.
Parent gene
- The parent gene g13703 is located on chr_1: 31873475..31879181 (+ 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_1 | g13703 | g13703.t1 | isoform | g13703.t1 | 31851779 | 31879181 |
| chr_1 | g13703 | g13703.t1 | exon | g13703.t1.exon1 | 31851779 | 31851956 |
| chr_1 | g13703 | g13703.t1 | cds | g13703.t1.CDS1 | 31851779 | 31851956 |
| chr_1 | g13703 | g13703.t1 | exon | g13703.t1.exon2 | 31873475 | 31873629 |
| chr_1 | g13703 | g13703.t1 | cds | g13703.t1.CDS2 | 31873475 | 31873629 |
| chr_1 | g13703 | g13703.t1 | exon | g13703.t1.exon3 | 31878201 | 31879181 |
| chr_1 | g13703 | g13703.t1 | cds | g13703.t1.CDS3 | 31878201 | 31879181 |
| chr_1 | g13703 | g13703.t1 | TSS | g13703.t1 | NA | NA |
| chr_1 | g13703 | g13703.t1 | TTS | g13703.t1 | NA | NA |
Sequences
>g13703.t1 Gene=g13703 Length=1314
ATGGCGGGCTTTCTTAAAACAACTGATCTCGGTGCACATCCGCACAGCTATGGAGCGCCA
CATCATCCTCATCACAGCCACGGTCCACCATTGCCACCTGGAATGCCAATGACAATGACA
CCATTTGGATTACCACATGGTCTCGACGCTGTTGGCTTTCCACATCAAGGTATGTGGGGC
GTAAATCCAAGAAAGCAACGCAGAGAGCGAACAACATTTACAAGAGCACAATTAGATGTG
CTTGAATCACTTTTTGGCAAAACTAGATATCCTGATATATTTATGCGCGAGGAAGTTGCA
CTTAAAATCAATTTGCCAGAATCAAGAGTTCAGGTATGGTTTAAAAATCGGCGCGCAAAA
TGCCGTCAACAACTTCAACATCAAACCTCATCATCATCATCGAATCTCAATAGTTCAAAA
TCATCATCGAGCTCATCAACGCGTAATTCAAATTCGACATCAGCGTCAACGTCCTCGTCG
AGTAAAACGACCAATACGACAAGCAACTCCACTAATTCTAGCGGCACCAAGTCATCACAT
ATAAAGGTGACACCAACGCATGCACTGTCGGCAAATCCAAGCAACAATAACAACAATTCT
GGCAATTCTAATAATAATAATAACAACAATACATCGAATAGCACGAGTGCAACTTCGAAT
GCCGTTAATAGTAGTTTAGGTGCTTTGAGCACATCCAATCATCATTCGACATCATCGCCT
ATTCTTCCTATAACACCATCAACATCGGTGAGTCCTCCGATTAATGTTATATGCAAGAAA
GAACTGCCATATCATCACCAAAATGGACTTGGCAATCATCAAGGTATGAACAATGGCTCA
ATGGATATTAAACCGGGCTCGGGTGCAAGTTCAGGCTACGACAGTCTCAAGGATAGTGAT
TTGGGTATCACATCAGTGCATCATGCATCATATCTTAATATAAATTCACGTTTGAGTCAA
ACTGGTGGCAATTTAACACCACTTGGTTCAAATTCATCAATTATGACAACACCTTCGCCA
CCAATCACGCCTCAGGCAAGTGGACCACTTTCATATGTTCCCAATCATGAGTCCTACAAT
TTCTGGCATAATCAATATAATCAGTACAATCCAAACAATTATAATACACCATATTATACA
ACACAAATGGACTATTTCAATAATCAAAGCCAATCGGGATATAATATGAGTCACTCGGGA
TACTCGCCATCAAATTTTGGCCTCTCAGGTGGTGCAATGAGTGGCGCAATGGCCTCACAG
ACATTCTCTTCTGATTACATGACACAGCAAGATAAATATGTAAATATGGTATAG
>g13703.t1 Gene=g13703 Length=437
MAGFLKTTDLGAHPHSYGAPHHPHHSHGPPLPPGMPMTMTPFGLPHGLDAVGFPHQGMWG
VNPRKQRRERTTFTRAQLDVLESLFGKTRYPDIFMREEVALKINLPESRVQVWFKNRRAK
CRQQLQHQTSSSSSNLNSSKSSSSSSTRNSNSTSASTSSSSKTTNTTSNSTNSSGTKSSH
IKVTPTHALSANPSNNNNNSGNSNNNNNNNTSNSTSATSNAVNSSLGALSTSNHHSTSSP
ILPITPSTSVSPPINVICKKELPYHHQNGLGNHQGMNNGSMDIKPGSGASSGYDSLKDSD
LGITSVHHASYLNINSRLSQTGGNLTPLGSNSSIMTTPSPPITPQASGPLSYVPNHESYN
FWHNQYNQYNPNNYNTPYYTTQMDYFNNQSQSGYNMSHSGYSPSNFGLSGGAMSGAMASQ
TFSSDYMTQQDKYVNMV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13703.t1 | CDD | cd00086 | homeodomain | 67 | 124 | 3.97951E-23 |
| 5 | g13703.t1 | Gene3D | G3DSA:1.10.10.60 | - | 57 | 126 | 6.6E-27 |
| 9 | g13703.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 124 | 182 | - |
| 10 | g13703.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 227 | 246 | - |
| 2 | g13703.t1 | PANTHER | PTHR45793 | HOMEOBOX PROTEIN | 11 | 293 | 1.2E-65 |
| 3 | g13703.t1 | PANTHER | PTHR45793:SF5 | HOMEOTIC PROTEIN OCELLILESS | 11 | 293 | 1.2E-65 |
| 1 | g13703.t1 | Pfam | PF00046 | Homeodomain | 67 | 123 | 3.9E-21 |
| 7 | g13703.t1 | ProSitePatterns | PS00027 | ‘Homeobox’ domain signature. | 99 | 122 | - |
| 11 | g13703.t1 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 64 | 124 | 19.289 |
| 8 | g13703.t1 | SMART | SM00389 | HOX_1 | 66 | 128 | 9.4E-24 |
| 4 | g13703.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 61 | 127 | 1.03E-23 |
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 |
| GO:0000981 | DNA-binding transcription factor activity, RNA polymerase II-specific | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K09326 (homeobox protein OTX1)
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