General information for g16828.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16828 is located on chr_4: 11264202..11265460 (+ 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 | g16828 | g16828.t1 | isoform | g16828.t1 | 11264202 | 11265460 |
| chr_4 | g16828 | g16828.t1 | exon | g16828.t1.exon1 | 11264202 | 11264331 |
| chr_4 | g16828 | g16828.t1 | cds | g16828.t1.CDS1 | 11264202 | 11264331 |
| chr_4 | g16828 | g16828.t1 | exon | g16828.t1.exon2 | 11264392 | 11264721 |
| chr_4 | g16828 | g16828.t1 | cds | g16828.t1.CDS2 | 11264392 | 11264721 |
| chr_4 | g16828 | g16828.t1 | exon | g16828.t1.exon3 | 11265028 | 11265176 |
| chr_4 | g16828 | g16828.t1 | cds | g16828.t1.CDS3 | 11265028 | 11265176 |
| chr_4 | g16828 | g16828.t1 | exon | g16828.t1.exon4 | 11265293 | 11265460 |
| chr_4 | g16828 | g16828.t1 | cds | g16828.t1.CDS4 | 11265293 | 11265460 |
| chr_4 | g16828 | g16828.t1 | TSS | g16828.t1 | NA | NA |
| chr_4 | g16828 | g16828.t1 | TTS | g16828.t1 | NA | NA |
Sequences
>g16828.t1 Gene=g16828 Length=777
ATGGCCACAGCTGCCTTCCAAAATGTCGATCAACGGCAAGAGTGTCTTAGACATTTACTT
GAACCTATTGGAGCACGATTTGATTCAGTTTGTGCTGAAGCATCAAGATTGCATAATGAA
ACTCATGTTCCACTTTTCCATTTGTTTATCAAACCATGCGAGAACGTTTTTCATCGATTA
CCTGACATTATGCTGCTATTCAGAAATTATTTGACAATAAATGTTGCTGTAATGAAAGTT
TTGATAGAAATGACGACAATTCAAGTTGCTACAAGTGGAGCAGTTGATTTATCAAGAGAT
TTCTATGAAGTCTGCTTTAGAGCCATGCGATGCTACATGGAAACACAGGGACAAAGAATT
GAAAAAATTTATGGTGATGATGAAGAACAGCCTGATGATGTTTTGATATTTGTAGAATTA
TTTAAAAAACTTACAATTCAATACGTCTTTGAACAAGCTGAACATTCTGTAGTTGCAAAT
TTAGGAATAACAATACTTTCAAATCTCATGCCGAAAATGTATCCATTACTTGAAAGATTC
CCAGATATTGCAATGGCATATTATAAAAGTCTCAATTGTTTCATTGAATTGCTCGTTTGT
AATAATGAGCTTCATCAACTTCCTGCTGAAATTCTCAATCATATTTTTATCACAATAAAA
ATTGGACTGACATCATTTACATATCCAGAAATTCAAGGACATTCACTTGATCTTCTTATA
ACTTTTGGTGATTCACTAATTCAAGAACACAGAAAATCGTTTGCAGCATTTACGTGA
>g16828.t1 Gene=g16828 Length=258
MATAAFQNVDQRQECLRHLLEPIGARFDSVCAEASRLHNETHVPLFHLFIKPCENVFHRL
PDIMLLFRNYLTINVAVMKVLIEMTTIQVATSGAVDLSRDFYEVCFRAMRCYMETQGQRI
EKIYGDDEEQPDDVLIFVELFKKLTIQYVFEQAEHSVVANLGITILSNLMPKMYPLLERF
PDIAMAYYKSLNCFIELLVCNNELHQLPAEILNHIFITIKIGLTSFTYPEIQGHSLDLLI
TFGDSLIQEHRKSFAAFT
Protein features from InterProScan
No InterPro annotations for this transcript.
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.
