General information for g428.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g428 is located on chr_3: 3319589..3320950 (- 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 | g428 | g428.t1 | TTS | g428.t1 | 3319495 | 3319495 |
| chr_3 | g428 | g428.t1 | isoform | g428.t1 | 3319589 | 3320881 |
| chr_3 | g428 | g428.t1 | exon | g428.t1.exon1 | 3319589 | 3320881 |
| chr_3 | g428 | g428.t1 | cds | g428.t1.CDS1 | 3319589 | 3320881 |
| chr_3 | g428 | g428.t1 | TSS | g428.t1 | 3321022 | 3321022 |
Sequences
>g428.t1 Gene=g428 Length=1293
ATGTTTGATGATTGGAATAATTTGCCAGACAACGTAACAAGAGAGATATTTTCATATTTG
AATTTTAAAGATTTATTTTTAAATGCATCATTTGTTTGTCAAAGTTGGTACGATTATATT
GGAAAAAGCAAAGAATGTATGGATAAAGTTCGGTTAAAAATAGAAGGATGGCATGATTTA
GAAATTATCTCTGATATTCTTTTACGAAATAGTCCTCGAATTTACAATTCCTTGATATTC
TACAATTTAAATGCTGAGAAGAAATTTCCTTATTTATTGCAACGAAGATGGAAAGATGTT
AAGCTTACACAAATGAAATTCATCTCAGCTAAAAAGTTCTATGAATATTTAAAAGAGTTT
GGCGAGGATCTTGAATCACTTGAAATTGAGAGAATTGTAATAATCAAAGGCGATGAAATG
TGCGATCAAACACTTGTGTTACCAAAATTAAGACACCTTAAACTAAAGCAAGTTCCAACA
TCAGCTTTTCAAGTATTTCAACGATACCCAAACATAAAATCACTACATTTCGATATACCT
GCATTTGGTTCAAAACGAAGAGAAGATATTACTGATTTCTTTGAGAAGTTTCGTGATGTA
AATTTAAAACAACTCACAATATGTAGAAATTCTCTTTACGGTTTACCAGAGACTGCTCAT
AAATTAATCGAGTCAATCATCATCTCAATGACAGCTACACTAGATTATATTGAATTGAAA
AATTGGGGATATTGTCATACTCTTGAATGCATTTGGAATGCTATGAAAGCAAAATATTTT
TCAATTAATGTTTGCTCACATGTGCCAATTACAAGAAATTTATTAGATTTGTCCCCAAAT
ACATATCTAAAGAGTTTTACATTATCACTTCTTATTGAACCTGAAATTGAATGGTTTAAA
AGATTATTCTTACTGACACCAAATTTAGAGGAATTAAAAATATCACTCATTAGAAAAGAA
GTTGTTTACTTAGCTGCTCATTATTTGCGAAAATTAAAAGTGCTCTCATATAAATCCTGC
ATTATTGAAGTAGCATGTGAAGAACATGAACTTGATGAATTTTCAGAAGAAGAAGAAGAC
AGTGATCCAGGATCGAATTATAATTTTTTAGGTCCAAATGAAGTGTTTGAATTGAGTAAA
TTTAATGAACGTCCGAATATGGTGAAAAGATATAAAGATGAGAAATTAAGCATAGATTTT
GCATATGTTTATTATCGAGAGTTGATTAGTCGAGAAACAAACATAAATCAACATATTAGA
CTTGAAAAGCTCTCATTTGATAATTGGAAATAA
>g428.t1 Gene=g428 Length=430
MFDDWNNLPDNVTREIFSYLNFKDLFLNASFVCQSWYDYIGKSKECMDKVRLKIEGWHDL
EIISDILLRNSPRIYNSLIFYNLNAEKKFPYLLQRRWKDVKLTQMKFISAKKFYEYLKEF
GEDLESLEIERIVIIKGDEMCDQTLVLPKLRHLKLKQVPTSAFQVFQRYPNIKSLHFDIP
AFGSKRREDITDFFEKFRDVNLKQLTICRNSLYGLPETAHKLIESIIISMTATLDYIELK
NWGYCHTLECIWNAMKAKYFSINVCSHVPITRNLLDLSPNTYLKSFTLSLLIEPEIEWFK
RLFLLTPNLEELKISLIRKEVVYLAAHYLRKLKVLSYKSCIIEVACEEHELDEFSEEEED
SDPGSNYNFLGPNEVFELSKFNERPNMVKRYKDEKLSIDFAYVYYRELISRETNINQHIR
LEKLSFDNWK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g428.t1 | Gene3D | G3DSA:1.20.1280.50 | - | 4 | 46 | 0.0000000 |
| 5 | g428.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 52 | 356 | 0.0000007 |
| 1 | g428.t1 | Pfam | PF00646 | F-box domain | 4 | 41 | 0.0000000 |
| 7 | g428.t1 | ProSiteProfiles | PS50181 | F-box domain profile. | 2 | 50 | 11.0340000 |
| 4 | g428.t1 | SMART | SM00256 | fbox_2 | 8 | 49 | 0.0021000 |
| 3 | g428.t1 | SUPERFAMILY | SSF81383 | F-box domain | 2 | 46 | 0.0000000 |
| 2 | g428.t1 | SUPERFAMILY | SSF52058 | L domain-like | 140 | 343 | 0.0000007 |
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:0005515 | protein binding | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
