General information for g3147.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Nucleoprotein TPR.
Parent gene
- The parent gene g3147 is located on chr_3: 23205432..23206631 (+ 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 | g3147 | g3147.t4 | TSS | g3147.t4 | 23198187 | 23198187 |
| chr_3 | g3147 | g3147.t4 | isoform | g3147.t4 | 23198238 | 23199636 |
| chr_3 | g3147 | g3147.t4 | exon | g3147.t4.exon1 | 23198238 | 23198398 |
| chr_3 | g3147 | g3147.t4 | exon | g3147.t4.exon2 | 23198692 | 23199636 |
| chr_3 | g3147 | g3147.t4 | cds | g3147.t4.CDS1 | 23198928 | 23199635 |
| chr_3 | g3147 | g3147.t4 | TTS | g3147.t4 | NA | NA |
Sequences
>g3147.t4 Gene=g3147 Length=1106
ATGGAGACTGAAAAAGCGGTTGCGACATTTGGCAATCGTGTATTGTCAAAAGAAGATTTA
GAAAAATTACCAGACGATGTACGCTCAAAATATGAATTATTTTTTTCTGAATTTCTTGAA
ATGAAGGCACTCTACGAGACTCAAAAGACAAACTTAGGTGAATGGCTTTCGTACAGAATA
TGAACAAAAGATTTCAGAGCTAACAGAGAAATATCAAGATGAATTTGCTAAAGCGCAATC
AGCACAAGTTTGTGTTAAAGAACTACGTGAACAACTTGATGAAGCGCGTGAGGAAGTGAC
GAAATTGAGTGAAAATCTTAAGCGTAACGAAGCAGAATTGTTGGAATATCGTAAAGATCG
TCATGGTGTCATTGATGAAAGAGACAGTCTTATGAAAATGGTTGAAAGAAGAAATTTTGA
AGTTGAACGATTGGAAGATGACATAAAGTCATTAAAAAAGCAATTGCAAGCTGCAATTAA
TGCCAAATGTGAAGCACTTTCTAAGCTTGATGAAATTCAACATAAAGAGTCAAATATTGA
ATTTAAGGAACGTCGATTAGAGCAAGAAAGAGTTTTATTACAAAGTCAAATTGATATGCT
CACAGCTGATCTCAATCGCAACATTCAAGAGCTTCAAAAATGTCGAAAAGAATCAACAGC
TCGAACGATGACAATTGAAACAAAGTTGCATGAGAAAACTGAAGAATTGAGCATTGCAAC
TTCACAAATTGCTCATTTAACTGAAACCAATACATCGCTAAATGCAAGAATTGAAGAACT
CTCACAACAAATTCTTTCACATAGCGAAGAATTTACAAAAATGATGGAAAAGTACCAAAA
AGAACTGCAAGCAAAAACAAGACTTGCTGAATTGTATAAGGATAAGAGTGAAGAAGCAAT
TAATGAACAGCGTGATATTGCAAATGTTGTTAGTGAACTAAAATCTACGTTAAAAGAAGC
GACAGAAGAATATGGAAATTTAGAGACAAAATATCGACAACTTGAGCTCAGTCAACAGCA
AGAACTTGATAAAAAGAATGAGGAAATTCTTTCATTGCAAGATGAATTGAAAAATGCAAA
TGATCTTTTAAAAGCAGCACAACAAG
>g3147.t4 Gene=g3147 Length=236
MVERRNFEVERLEDDIKSLKKQLQAAINAKCEALSKLDEIQHKESNIEFKERRLEQERVL
LQSQIDMLTADLNRNIQELQKCRKESTARTMTIETKLHEKTEELSIATSQIAHLTETNTS
LNARIEELSQQILSHSEEFTKMMEKYQKELQAKTRLAELYKDKSEEAINEQRDIANVVSE
LKSTLKEATEEYGNLETKYRQLELSQQQELDKKNEEILSLQDELKNANDLLKAAQQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g3147.t4 | Coils | Coil | Coil | 2 | 29 | - |
| 5 | g3147.t4 | Coils | Coil | Coil | 40 | 85 | - |
| 2 | g3147.t4 | Coils | Coil | Coil | 111 | 163 | - |
| 4 | g3147.t4 | Coils | Coil | Coil | 178 | 236 | - |
| 1 | g3147.t4 | PANTHER | PTHR18898 | NUCLEOPROTEIN TPR-RELATED | 1 | 227 | 9.6E-34 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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. There were no conditions that were differentially expressed