General information for g1828.t7
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.t7 | isoform | g1828.t7 | 13218546 | 13219765 |
| chr_3 | g1828 | g1828.t7 | exon | g1828.t7.exon1 | 13218546 | 13219174 |
| chr_3 | g1828 | g1828.t7 | cds | g1828.t7.CDS1 | 13218548 | 13219174 |
| chr_3 | g1828 | g1828.t7 | exon | g1828.t7.exon2 | 13219225 | 13219765 |
| chr_3 | g1828 | g1828.t7 | cds | g1828.t7.CDS2 | 13219225 | 13219491 |
| chr_3 | g1828 | g1828.t7 | TSS | g1828.t7 | 13219895 | 13219895 |
| chr_3 | g1828 | g1828.t7 | TTS | g1828.t7 | NA | NA |
Sequences
>g1828.t7 Gene=g1828 Length=1170
ATGGATAAAGTAAAAGGAAGTAGAAGCACAGAAATACTGCCAGACTTTCGAAAAAGAAAC
ATATCGGGTGTATTCTCATCTTGGCGACCAAAAAAAGAAGAGAATAAACAGAATGTCGAA
ACTAAAAAGAAGTGAGTTTTAGAGTTTCTATGATAATAAAAGATACAAGCAAATAAAAAA
TTTTCAAGGTCATTACTAAACAATTTGAGTTTACACTTTTTAAAACCTTTTTTTTATTAG
ATCATCTGGATCAAAGTCAATTTTTTCAACATTAATGTTAGCGAATGTTGAAGATCGTCT
ATATTTGGATCCATCGGGTTCAATGGAATCAATGACATTCGAGGCACAAAAGGAAAAATT
AAAAAGTAAACTACATCGAGTTAAACTTGAAAAATCAAAAATACCGCAAATTATTGTCAC
TAATTCCAATAATCAAAAGCAACCAAACAATAATAAAAATGTTGTGGAAGAAGAAGAAGA
AGAGGAGGAAATTGAATTGCCGAAACCAGTTTCTTTCATTGTATTGAATGTAGATCCATA
TATTCTAGATATATATCAAGACATTCTGTATAATATTACACACCAACTACAGTCATGTGA
CGACAATGATGAACCAGAAATTCAGCCTGAGGTTGCACTTAATTACGTTCGAGATGCATT
TGGCGTTAATGAATGTAAACATTTAGAATTGATGGAGAAAATAAAGCAGCGAGAAAAGCC
AGAAGATTGCGTCAAAGCAGACAGCGGTGAAATAGACAGCAGTACTGCACCCTTTGCAGT
GCTCTCTCCTAAAATTAAAAATTATGAAAGTTTAAATGCTCATTGTGATTTGATAAAAAT
TTTACTTAAACACGAATTGGAAACATCAAAAACACCTCATTATTATTGGATGGGAAAATT
TAGTTTCCTAGCTTCAAAAATTTTATCACTTCATGCAGACTTTCAATTTTTAGATGAGCT
GCAAGTTTCTTTTGCTAAATGGATAGCATTTGTAGAAATTCATAGACAGTACCCATTACA
TCTAAAAGTATTTGAAGATACACTTGATAAAATTGTAGACGTTTACAAAGATGAAGAGAC
GTCAACAGCACTTTTACCCGCTAGGATGTCTACAACTCTCACTTTCATTCCTGCATGCTT
CGGATTCACTGGTGCAATTAAACCTGGACT
>g1828.t7 Gene=g1828 Length=298
MLANVEDRLYLDPSGSMESMTFEAQKEKLKSKLHRVKLEKSKIPQIIVTNSNNQKQPNNN
KNVVEEEEEEEEIELPKPVSFIVLNVDPYILDIYQDILYNITHQLQSCDDNDEPEIQPEV
ALNYVRDAFGVNECKHLELMEKIKQREKPEDCVKADSGEIDSSTAPFAVLSPKIKNYESL
NAHCDLIKILLKHELETSKTPHYYWMGKFSFLASKILSLHADFQFLDELQVSFAKWIAFV
EIHRQYPLHLKVFEDTLDKIVDVYKDEETSTALLPARMSTTLTFIPACFGFTGAIKPG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g1828.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 47 | 71 | - |
| 1 | g1828.t7 | PANTHER | PTHR45999:SF2 | PROTEIN UNC-13 HOMOLOG 4B | 23 | 150 | 1.8E-24 |
| 3 | g1828.t7 | PANTHER | PTHR45999 | UNC-13-4A, ISOFORM B | 23 | 150 | 1.8E-24 |
| 2 | g1828.t7 | PANTHER | PTHR45999:SF2 | PROTEIN UNC-13 HOMOLOG 4B | 179 | 290 | 1.8E-24 |
| 4 | g1828.t7 | PANTHER | PTHR45999 | UNC-13-4A, ISOFORM B | 179 | 290 | 1.8E-24 |
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.
