General information for g1828.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1828 is located on chr_3: 13218929..13219765 (- 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 | g1828 | g1828.t5 | isoform | g1828.t5 | 13215680 | 13219225 |
| chr_3 | g1828 | g1828.t5 | exon | g1828.t5.exon1 | 13215680 | 13215928 |
| chr_3 | g1828 | g1828.t5 | cds | g1828.t5.CDS1 | 13215916 | 13215928 |
| chr_3 | g1828 | g1828.t5 | exon | g1828.t5.exon2 | 13218549 | 13218870 |
| chr_3 | g1828 | g1828.t5 | cds | g1828.t5.CDS2 | 13218549 | 13218870 |
| chr_3 | g1828 | g1828.t5 | exon | g1828.t5.exon3 | 13218928 | 13219225 |
| chr_3 | g1828 | g1828.t5 | cds | g1828.t5.CDS3 | 13218928 | 13219024 |
| chr_3 | g1828 | g1828.t5 | TSS | g1828.t5 | 13219895 | 13219895 |
| chr_3 | g1828 | g1828.t5 | TTS | g1828.t5 | NA | NA |
Sequences
>g1828.t5 Gene=g1828 Length=869
TGTGAGTAATGAATGATCATCAAATGAATGTAAATAAAGCTTCTTTATTAGATTCTAGAT
ATATATCAAGACATTCTGTATAATATTACACACCAACTACAGTCATGTGACGACAATGAT
GAACCAGAAATTCAGCCTGAGGTTGCACTTAATTACGTTCGAGATGCATTTGGCGTTAAT
GAATGTAAACATTTAGAATTGATGGAGAAAATAAAGCAGCGAGAAAAGCCAGAAGATTGC
GTCAAAGCAGACAGCGGTGAAATAGACAGCAGTACTGCACCCTTTGCAGTGCTCTCTCTT
AAACACGAATTGGAAACATCAAAAACACCTCATTATTATTGGATGGGAAAATTTAGTTTC
CTAGCTTCAAAAATTTTATCACTTCATGCAGACTTTCAATTTTTAGATGAGCTGCAAGTT
TCTTTTGCTAAATGGATAGCATTTGTAGAAATTCATAGACAGTACCCATTACATCTAAAA
GTATTTGAAGATACACTTGATAAAATTGTAGACGTTTACAAAGATGAAGAGACGTCAACA
GCACTTTTACCCGCTAGGATGTCTACAACTCTCACTTTCATTCCTGCATGCTTCGGATTC
ACTGGTGCAATTAAACCTGGTTACACTTTGTAAATTCAATTTCTTCATAGACTCATTCAA
CACAAAACCTTGTCGCAAATTTAGAGGAAATTAAAAATAAATTACATTGATAGATATAAT
GGAAGAACAGAACAGAACACTACAATATGCTAAATAATTCCTCGAAATTCTAATTGAAAC
AGCATGTGTATTTTTCATTGGTTGAAAATTTCATAAAATTACTTAGTATGAGTTCAGTGT
TCAGTTGGTCAAGTCTTTTCTCAAATATT
>g1828.t5 Gene=g1828 Length=143
MEKIKQREKPEDCVKADSGEIDSSTAPFAVLSLKHELETSKTPHYYWMGKFSFLASKILS
LHADFQFLDELQVSFAKWIAFVEIHRQYPLHLKVFEDTLDKIVDVYKDEETSTALLPARM
STTLTFIPACFGFTGAIKPGYTL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g1828.t5 | PANTHER | PTHR45999:SF2 | PROTEIN UNC-13 HOMOLOG 4B | 33 | 132 | 3.9E-12 |
| g1828.t5 | PANTHER | PTHR45999 | UNC-13-4A, ISOFORM B | 33 | 132 | 3.9E-12 |
| g1828.t5 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 115 | 137 | - |
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.
