General information for g16654.t3
Yuki Yoshida
6/2/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16654 is located on chr_4: 10414677..10415956 (- 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_4 | g16654 | g16654.t3 | TTS | g16654.t3 | 10414152 | 10414152 |
| chr_4 | g16654 | g16654.t3 | isoform | g16654.t3 | 10414221 | 10415956 |
| chr_4 | g16654 | g16654.t3 | exon | g16654.t3.exon1 | 10414221 | 10414664 |
| chr_4 | g16654 | g16654.t3 | cds | g16654.t3.CDS1 | 10414221 | 10414664 |
| chr_4 | g16654 | g16654.t3 | exon | g16654.t3.exon2 | 10415251 | 10415956 |
| chr_4 | g16654 | g16654.t3 | cds | g16654.t3.CDS2 | 10415251 | 10415352 |
| chr_4 | g16654 | g16654.t3 | TSS | g16654.t3 | 10415963 | 10415963 |
Sequences
>g16654.t3 Gene=g16654 Length=1150
ATGAGTGCTAGAGGAGCTGTAAGTAAACAAATAGGAATTTCAAATATTTAAATTTATTTT
TTATCAATTTTTAGGACTTTAGAGCACAAAGATCTTCCCAACGATCACATGAAATCCATG
GATGGTTAAAGCACATAGGAAAACTAGGATTTCCATTGCAAATTCTTCTCAAATCATATC
AATGTTTTGTTGTTTGGTGTGATGTTATGACACTCATTATCAGATCTTATTTTGCAATTC
TTCAGACAATTTTGTGTTTTTTTATTCCTGTATCAAGAAAAAGTTTGAAGACTGAAGTTG
CAGTTGTTGTTGGATCATCAAGAGGTTTGTAAAAATTTTTAAATTTTGATATTTTTTAGA
AGAATTTAAAACTTGTTAATTTTTATTTAATATTTTAGGAGTTGGCAGAGAAATCGCTTA
CAAATTAAGTTCATTGAGAGCAACAGTAGTATGCATAGACATTCAAGATCCAGATGATGA
AACAGTTTCAAAAACAATCAGAGCTGAAGGTGCAAATGCTTATTATTTTCAATGTGATAT
TTCAATTAGAGACCAAGTTGACATAACAGTCAGCAGAATTGAAAAAGAAATTGGTGGAAT
TTCCATGCTTTATCATTGTTGCTCTCTACCTTCACCAAGATGTGTTTCTACTAATCCTCC
TTCAGTTAAAGCAACTTTGGATGTTTCTGTTACGAGCTATTTTTATTTACTCGATGCTAT
TCTTCCACATATGAAGACAAATAACAAAGGTCATATTGTATTTCTTACGTCTGTTGCTGC
GATTAGTGGATTTACACAGCAACTTGCATTAAGTGTATCACAATTCGCCATACAAGGTCT
TTATGAGTCAATTGTTGAAGAATTAAGAATATCGAGATGTGATCAAATTATAAAAACAAC
TTTGGTTCATATTTATCCATTTATTGTCAGTGAAAATTTCTCTAATGATATTCGATTTAG
AGTTCCAGGATTTTTTGGTTCAATTCGAGCTGATATTGCTGCTGAAAAAATTATTGATGG
TGTAAGAATGAATGCAAGTGAAATAAGCATTCCAAGTTATTGTTTGTACATCAGTCATGT
ACTGAAAATTTTACCAAGAAAAGTAACTTTAATGTTAAGAGAATTTCTTGATACTGGAGT
TGATTTTTGA
>g16654.t3 Gene=g16654 Length=181
MLYHCCSLPSPRCVSTNPPSVKATLDVSVTSYFYLLDAILPHMKTNNKGHIVFLTSVAAI
SGFTQQLALSVSQFAIQGLYESIVEELRISRCDQIIKTTLVHIYPFIVSENFSNDIRFRV
PGFFGSIRADIAAEKIIDGVRMNASEISIPSYCLYISHVLKILPRKVTLMLREFLDTGVD
F
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g16654.t3 | Gene3D | G3DSA:3.40.50.720 | - | 2 | 177 | 2.4E-17 |
| 2 | g16654.t3 | PANTHER | PTHR24322 | PKSB | 19 | 180 | 1.0E-33 |
| 3 | g16654.t3 | PANTHER | PTHR24322:SF730 | FI02989P-RELATED | 19 | 180 | 1.0E-33 |
| 1 | g16654.t3 | Pfam | PF00106 | short chain dehydrogenase | 17 | 90 | 3.0E-11 |
| 4 | g16654.t3 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 13 | 173 | 4.11E-15 |
| 5 | g16654.t3 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 23 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
## [1] "No matching GO terms"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