General information for g567.t14
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g567 is located on chr_3: 4170778..4171803 (+ 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 | g567 | g567.t14 | isoform | g567.t14 | 4170710 | 4171803 |
| chr_3 | g567 | g567.t14 | exon | g567.t14.exon1 | 4170710 | 4171009 |
| chr_3 | g567 | g567.t14 | cds | g567.t14.CDS1 | 4170725 | 4171009 |
| chr_3 | g567 | g567.t14 | exon | g567.t14.exon2 | 4171103 | 4171221 |
| chr_3 | g567 | g567.t14 | cds | g567.t14.CDS2 | 4171103 | 4171135 |
| chr_3 | g567 | g567.t14 | exon | g567.t14.exon3 | 4171422 | 4171803 |
| chr_3 | g567 | g567.t14 | TTS | g567.t14 | 4171812 | 4171812 |
| chr_3 | g567 | g567.t14 | TSS | g567.t14 | NA | NA |
Sequences
>g567.t14 Gene=g567 Length=801
GAGGGTATCATCATTATGAATGAGTCACCTTTGATTTGTCCACTTTTGCATATCGTACCA
AAAGCTACACCATCACAGAATGAAGTTGATAACGATAACAATGATGTGCTAGAGATGTCA
TTAAACAATGATATAATAATACCAAAATCAAGCAAATTTCCATTGGGTTATTTGTTCCTA
ATTTCAATTTTGATTGCTGCATTTGGAATTTTCTATATTGTCATAAGAAATCCTGAGCGT
CGCGACATAATTCGCAATATGATTAAATTCCGATCTCGGTCAAATGTTCGATACACACGA
AACATGAATGATGACGATTTAATTTTAAACTAGTTATGCCAATATAGTTTTCTTTCCATT
ACACTTGTTATCATCCTAAAACAAAACAAAATAGTTCCTGTAGAAAAATCACTATGCATG
TGCGACTTAATGAAGAATCAGCCCTCTTAGATGGTAATAGTCCAAATTCAGATAGTGATG
ATGAGAATATTTTGCTGTAAATACCTTGAGAGGAAGCCAAATTTTTTGATAGTATGTAAA
AGTGTTATTTTTGTTACTTCATATTGAAATAATGTGATTTATGAAAGTAATCAACTATAC
TTTCTGCTGGTTCTAAGTCATGTATCACTAATATATTAAAGTATTTAATTTATATTGTTA
TTTTTGCTGGCTGAAAGACACAACATGAACATGAAACAGGCTGATAACAGTAAATAGTGT
TTTAAATAATTGTATTTTTCTATCACCTCATTCAATACAATCCAAAAAAGTTGTTGAATT
AAATAAAATTGAGTGATTTTT
>g567.t14 Gene=g567 Length=105
MNESPLICPLLHIVPKATPSQNEVDNDNNDVLEMSLNNDIIIPKSSKFPLGYLFLISILI
AAFGIFYIVIRNPERRDIIRNMIKFRSRSNVRYTRNMNDDDLILN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g567.t14 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 49 | - |
| 4 | g567.t14 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 50 | 70 | - |
| 2 | g567.t14 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 71 | 105 | - |
| 1 | g567.t14 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 48 | 70 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g567/g567.t14; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g567.t14.fa.iupred3.txt does not exist
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.
