General information for g3897.t14
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3897 is located on chr_3: 28701752..28704956 (- 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 | g3897 | g3897.t14 | isoform | g3897.t14 | 28698267 | 28699561 |
| chr_3 | g3897 | g3897.t14 | exon | g3897.t14.exon1 | 28698267 | 28698410 |
| chr_3 | g3897 | g3897.t14 | exon | g3897.t14.exon2 | 28698472 | 28699025 |
| chr_3 | g3897 | g3897.t14 | cds | g3897.t14.CDS1 | 28698858 | 28699025 |
| chr_3 | g3897 | g3897.t14 | exon | g3897.t14.exon3 | 28699213 | 28699561 |
| chr_3 | g3897 | g3897.t14 | cds | g3897.t14.CDS2 | 28699213 | 28699398 |
| chr_3 | g3897 | g3897.t14 | TSS | g3897.t14 | NA | NA |
| chr_3 | g3897 | g3897.t14 | TTS | g3897.t14 | NA | NA |
Sequences
>g3897.t14 Gene=g3897 Length=1047
TTATGCTGCAGAAAAAGTTCTCGTTGAATTTCCTTTCAATGATTTATTTGAAGAACGCGC
TATTGTATTGGGAAAATTAAACAAGCATGAAAAAGTTTTAGCCATATACATTCAAATCCT
TGGTGATGTAGAAAAAGCAATTGAGTATTGTGATCAAGTTTTCATGTCCGCTAGTGTCAA
TCATAATGATGTGTACATAATTTTAATTCGATTGCTTCTTAATCCACCGACTGTTCCACC
ATATAACGAAGTAAAATTACACGAGAAATGCTTACAACCAGACATTGAAGCTGTTCTTGA
TATACTTGAGAAAAATGCGAAAAAAATCAATCCACATTCCGTTTTAACTCAAAACATGAT
TTGTGAATCAAGAAGTTTCTTAATCACGGAACTTACATTATGTGCGGTGTGTAAAAGAAA
ATTTAGTAATCAGTCTGCTTTTGTGCGTTTAGCAAATGGCGATTTAATTCATATAAATTG
TCAAAATAAGGAGTTTGATGCTACTAAAATTATTTAAAATCATATTTATCGATAAATTTT
TGTTATTTTATTATTATTTGCCTATGCGTAATAAATCTATATTCCTGAAATTATCATTAA
TCTTTTTTTACTTCTTATCATCACCTCCCAAACTTTCATCTTCAGCTAATGCACTTTTGA
TTCCTGCATTTTTCCAGAGAGTCTCAATTAGTGAACCATCTTTATGCATCTGTAGAAGAA
TATCGCAACCACCGATAAATTCACCGTTAATAAAAACTTGAGGAATAGTTGGCCAACTTG
TGAAATCTTTTATCCCTTGTCGAAGCTCTTCATCCGATAATACATCATGTGCATCGAATT
TAACATCGTGCATATTAAGAATTTGTACGACAGCATTTGAAAATCCACATCTTGGTGCAT
CAGTACCTTCATGAAAACAACAACTTTGTTCTTTTTTGTTAACTCCTCAATAAACTTGGC
ATCTGTTGCAAAACGACTGCATTGCATTAATAATTGACGCTGATTGCGAATTAAATGTGT
GCTTATATTCTTTATTAAAAAATTCAT
>g3897.t14 Gene=g3897 Length=117
MSASVNHNDVYIILIRLLLNPPTVPPYNEVKLHEKCLQPDIEAVLDILEKNAKKINPHSV
LTQNMICESRSFLITELTLCAVCKRKFSNQSAFVRLANGDLIHINCQNKEFDATKII
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g3897.t14 | Pfam | PF10367 | Vacuolar sorting protein 39 domain 2 | 50 | 108 | 0 |
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.
