General information for g827.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g827 is located on chr_3: 6296268..6296962 (+ 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 | g827 | g827.t3 | isoform | g827.t3 | 6296268 | 6296962 |
| chr_3 | g827 | g827.t3 | exon | g827.t3.exon1 | 6296268 | 6296512 |
| chr_3 | g827 | g827.t3 | cds | g827.t3.CDS1 | 6296268 | 6296512 |
| chr_3 | g827 | g827.t3 | exon | g827.t3.exon2 | 6296659 | 6296962 |
| chr_3 | g827 | g827.t3 | cds | g827.t3.CDS2 | 6296659 | 6296962 |
| chr_3 | g827 | g827.t3 | TTS | g827.t3 | 6297130 | 6297130 |
| chr_3 | g827 | g827.t3 | TSS | g827.t3 | NA | NA |
Sequences
>g827.t3 Gene=g827 Length=549
ATGTCATGTTTAAATTTACTATTTCTTATTACTTTAATATCAACTGCAAACGCAGCAGAT
TGCAATTTTGAATATCAAGAAAATGTCGATAATTATCCAAGTGAATTGATAGATTCAATT
GTAGAATCAGAAAATTTAACTAATCCTTCAGAAAAAGGAAGTGCTGCAGAATTTTTTTGT
CTTGATGATGAATTTGAACTAGATGATAGAGAAAAAGAAAAAAGTTCAACAGATATAATG
GACAGAATAGAGTATTCAGAAATTGAACCAGATGAAGATGAATGTGAAGTAAGAAAAAGA
ACAATTCGACCAAAGTCATTGACAAATATTCTTAACGAAATGTCAACAATAGTAAATGGG
CTTAATTTTATCCAAGAAATTAATATTGAAGAATGTGTAAAACCAAAACATAAATGTCGT
GAAGATGAACCCGGAAAACTTTGCTTATGCTTTCAAAAGTATATGATACAAACTTTAAGA
GCTTTTGTCCAAATAATCATAAAATTATGGATGAACATTTTAAAATTCCTAGTGATTGTA
ATTGTTTAA
>g827.t3 Gene=g827 Length=182
MSCLNLLFLITLISTANAADCNFEYQENVDNYPSELIDSIVESENLTNPSEKGSAAEFFC
LDDEFELDDREKEKSSTDIMDRIEYSEIEPDEDECEVRKRTIRPKSLTNILNEMSTIVNG
LNFIQEINIEECVKPKHKCREDEPGKLCLCFQKYMIQTLRAFVQIIIKLWMNILKFLVIV
IV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g827.t3 | Gene3D | G3DSA:2.10.90.10 | - | 88 | 172 | 7.6E-12 |
| 2 | g827.t3 | PANTHER | PTHR23199:SF4 | PROTEIN SPAETZLE | 20 | 161 | 1.4E-14 |
| 3 | g827.t3 | PANTHER | PTHR23199 | UNCHARACTERIZED | 20 | 161 | 1.4E-14 |
| 1 | g827.t3 | Pfam | PF16077 | Spaetzle | 93 | 163 | 4.4E-12 |
| 9 | g827.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 10 | g827.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 11 | g827.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 12 | g827.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 8 | g827.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 182 | - |
| 4 | g827.t3 | SUPERFAMILY | SSF57501 | Cystine-knot cytokines | 32 | 161 | 6.02E-8 |
| 6 | g827.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 13 | g827.t3 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 5 | g827.t3 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 18 | - |
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