General information for g10101.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Homeobox protein aristaless-like 3.
Parent gene
- The parent gene g10101 is located on chr_1: 7363333..7365753 (+ 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 | g10101 | g10101.t1 | isoform | g10101.t1 | 7363333 | 7365753 |
| chr_1 | g10101 | g10101.t1 | exon | g10101.t1.exon1 | 7363333 | 7363630 |
| chr_1 | g10101 | g10101.t1 | cds | g10101.t1.CDS1 | 7363333 | 7363630 |
| chr_1 | g10101 | g10101.t1 | exon | g10101.t1.exon2 | 7365152 | 7365292 |
| chr_1 | g10101 | g10101.t1 | cds | g10101.t1.CDS2 | 7365152 | 7365292 |
| chr_1 | g10101 | g10101.t1 | exon | g10101.t1.exon3 | 7365353 | 7365753 |
| chr_1 | g10101 | g10101.t1 | cds | g10101.t1.CDS3 | 7365353 | 7365753 |
| chr_1 | g10101 | g10101.t1 | TSS | g10101.t1 | NA | NA |
| chr_1 | g10101 | g10101.t1 | TTS | g10101.t1 | NA | NA |
Sequences
>g10101.t1 Gene=g10101 Length=840
ATGTTAAACTTAAATACAAATAATGATTATGCAATGGCATTTTCACATCATCACATGCCA
AATGATCAACAATTTTATCCAAATCTTTATTCAAATGTCAATACAACGACAACGACTAAT
ATTAAAGATAAAAATGATTTAATGTTTAAGAATCAAAAGGTTGACTTTCTTAACAACAAT
AACAGCACAACTGAGCCATTTACGGTCATCAAAGATGGTGAAAACTCTAAGAGATTTTCT
GTCAATCACTTGTTAAAACCTCCAATATCTTCACCTTCGGCAGCTGAAAAATTCAATGTT
GACTCCTCGCTACCAATAAGTTTACCAGACTTGATGCATGATGCCGATACTTCGAAAAAG
CCGAGAAGAAATCGCACAACATTTACATCATTGCAATTAACAGCTCTCGAGAAAATTTTT
GAACGAACGCACTATCCTGATGCATTTGTTCGTGAAGAATTGGCACAGAAAGTAGGTTTG
ACAGAATCACGTGTACAAGTTTGGTTCCAGAACCGTAGGGCAAAACATCGACGAAATGAA
AGAACTGTGACAAGTAGTAGAACATCAACTACTTCAGTATCGAATATTTCATCTTCTGTA
TCATCACCAACACAAAAGCCTTTAATCACTCATGATAAACCACCGCATCAATTTGATTTT
CCGCCACCTTACTCACTTAGCTTCGGTACATTAGGAATGTTTCAATCACCATCAACCACA
TCAAATTCAATTAAAAATCCTGATTTAAATTACAGCAATTCTTTTAATCCTTACACACAA
TATCAACAAAATTACAACAATTATTGTGCTAGCAATTTTCGCTATAAATCGCCTTACTAA
>g10101.t1 Gene=g10101 Length=279
MLNLNTNNDYAMAFSHHHMPNDQQFYPNLYSNVNTTTTTNIKDKNDLMFKNQKVDFLNNN
NSTTEPFTVIKDGENSKRFSVNHLLKPPISSPSAAEKFNVDSSLPISLPDLMHDADTSKK
PRRNRTTFTSLQLTALEKIFERTHYPDAFVREELAQKVGLTESRVQVWFQNRRAKHRRNE
RTVTSSRTSTTSVSNISSSVSSPTQKPLITHDKPPHQFDFPPPYSLSFGTLGMFQSPSTT
SNSIKNPDLNYSNSFNPYTQYQQNYNNYCASNFRYKSPY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g10101.t1 | CDD | cd00086 | homeodomain | 122 | 180 | 6.16982E-25 |
| 6 | g10101.t1 | Gene3D | G3DSA:1.10.10.60 | - | 110 | 183 | 1.6E-30 |
| 11 | g10101.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 178 | 205 | - |
| 10 | g10101.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 184 | 205 | - |
| 2 | g10101.t1 | PANTHER | PTHR24329 | HOMEOBOX PROTEIN ARISTALESS | 7 | 265 | 1.2E-40 |
| 4 | g10101.t1 | PRINTS | PR00031 | Lambda-repressor HTH signature | 150 | 159 | 3.2E-6 |
| 3 | g10101.t1 | PRINTS | PR00031 | Lambda-repressor HTH signature | 159 | 175 | 3.2E-6 |
| 1 | g10101.t1 | Pfam | PF00046 | Homeodomain | 122 | 178 | 7.5E-24 |
| 9 | g10101.t1 | ProSitePatterns | PS00027 | ‘Homeobox’ domain signature. | 154 | 177 | - |
| 12 | g10101.t1 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 119 | 179 | 21.556 |
| 8 | g10101.t1 | SMART | SM00389 | HOX_1 | 121 | 183 | 8.8E-28 |
| 5 | g10101.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 115 | 181 | 2.99E-27 |
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 K09329 (paired mesoderm homeobox protein)
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.
