General information for g8471.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Homeobox protein AKR.
Parent gene
- The parent gene g8471 is located on chr_2: 30874495..30875169 (+ 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 | g8471 | g8471.t3 | TSS | g8471.t3 | 30873708 | 30873708 |
| chr_2 | g8471 | g8471.t3 | isoform | g8471.t3 | 30873891 | 30875169 |
| chr_2 | g8471 | g8471.t3 | exon | g8471.t3.exon1 | 30873891 | 30874436 |
| chr_2 | g8471 | g8471.t3 | cds | g8471.t3.CDS1 | 30874065 | 30874436 |
| chr_2 | g8471 | g8471.t3 | exon | g8471.t3.exon2 | 30874500 | 30874651 |
| chr_2 | g8471 | g8471.t3 | cds | g8471.t3.CDS2 | 30874500 | 30874651 |
| chr_2 | g8471 | g8471.t3 | exon | g8471.t3.exon3 | 30874884 | 30875169 |
| chr_2 | g8471 | g8471.t3 | cds | g8471.t3.CDS3 | 30874884 | 30875169 |
| chr_2 | g8471 | g8471.t3 | TTS | g8471.t3 | 30875339 | 30875339 |
Sequences
>g8471.t3 Gene=g8471 Length=984
ATGTCTCAACAAAAAATAGATATAAAACAGGAAGATTTCATGAATGAACCACAAGTGAAA
TTGCTTCACGAAAGTAAGTTTGATTGAAACATTAAGATCAATTATAATGCATTTATATAT
GATACTAATAAACTTTTAGATCAAAGCTTTGAAGAACTTGATGAAAGTGGAGTAATGATG
AATGAAATTGTAGATGAATATAATAATGACGATAGTTTTCGAAAAAGAAGAGGCAATTTA
CCAAAAAAATCAGTAAATTTTCTCAAAAATTGGCTCTTTAATCACAGATTAAATGCATAT
CCAACAGAGGAAGAAAAAGTCATGTTATCAAAAGAGACCGGACTCACAAATCTTCAAATT
TGTAATTGGTTTATAAATGCAAGAAGAAGAATTTTGCCTGAAATGATAAAAACTCATGAC
GGATATGACCCTAATAAATTTAGAATTTCACGTAAAGGAAAACATGGAAATGAAAAGCCG
TTGAGCTTTTCTACTTTGTTGGCAACAAAAAAAGATATGCCTATGAAATTTACAACATCA
AAATCTATAAGTCAAGTTCAAGAAGAAATTATGGATTCAAGTGGTAATCAATCATCAGAA
GATATTGAAATTGACACAGATGCATTAGCTTACATGAAAAACGAAGGATCTCTAATGAAA
ATCGGAAATGATTATGACGAAAATAATTTAATTTATAGATCGGATGAAGATATTGATATT
GAAGAACACAAATATGTGCCTATAATTGAAGGAGCATCAACATCAAATGATTTTTATAAT
ATTGCGTCTCATCCACGTTTTGCTCATTTGAGTGAATCACGACGCAAATCAACACCTCCG
ATGCGTATTCAACAAGTGCCACACAATCTTCCTGCACAATCGAGCTCATCTCAAGAACTT
CATCAAAGTGTTCGTGTTCGTGGCGTCATTCGAGATCCTGCAAATTCAAAATGTTTATAT
TTACTCGTAGACTCCAACTCATAA
>g8471.t3 Gene=g8471 Length=269
MMNEIVDEYNNDDSFRKRRGNLPKKSVNFLKNWLFNHRLNAYPTEEEKVMLSKETGLTNL
QICNWFINARRRILPEMIKTHDGYDPNKFRISRKGKHGNEKPLSFSTLLATKKDMPMKFT
TSKSISQVQEEIMDSSGNQSSEDIEIDTDALAYMKNEGSLMKIGNDYDENNLIYRSDEDI
DIEEHKYVPIIEGASTSNDFYNIASHPRFAHLSESRRKSTPPMRIQQVPHNLPAQSSSSQ
ELHQSVRVRGVIRDPANSKCLYLLVDSNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g8471.t3 | CDD | cd00086 | homeodomain | 16 | 72 | 0.000 |
| 6 | g8471.t3 | Gene3D | G3DSA:1.10.10.60 | - | 10 | 84 | 0.000 |
| 2 | g8471.t3 | PANTHER | PTHR11850 | HOMEOBOX PROTEIN TRANSCRIPTION FACTORS | 11 | 100 | 0.000 |
| 3 | g8471.t3 | PANTHER | PTHR11850:SF68 | HOMEOBOX PROTEIN TGIF2 | 11 | 100 | 0.000 |
| 1 | g8471.t3 | Pfam | PF05920 | Homeobox KN domain | 33 | 72 | 0.000 |
| 7 | g8471.t3 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 13 | 76 | 12.455 |
| 5 | g8471.t3 | SMART | SM00389 | HOX_1 | 15 | 80 | 0.000 |
| 4 | g8471.t3 | SUPERFAMILY | SSF46689 | Homeodomain-like | 16 | 81 | 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 |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K19383 (homeobox protein TGIF1)
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.
