General information for g3960.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3960 is located on chr_3: 29284314..29285328 (+ 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 | g3960 | g3960.t3 | TSS | g3960.t3 | 29279442 | 29279442 |
| chr_3 | g3960 | g3960.t3 | isoform | g3960.t3 | 29279693 | 29280402 |
| chr_3 | g3960 | g3960.t3 | exon | g3960.t3.exon1 | 29279693 | 29280402 |
| chr_3 | g3960 | g3960.t3 | cds | g3960.t3.CDS1 | 29279971 | 29280402 |
| chr_3 | g3960 | g3960.t3 | TTS | g3960.t3 | NA | NA |
Sequences
>g3960.t3 Gene=g3960 Length=710
ACAATAAACCAAATAATTCACTCTATTCATCATCTTCATCATCAAATATTTCAAGACCAA
TTGATGAGTTAGATTTAATTTCATTCACTAGTGATATTCAAGAAAGTGCTCATAATGCAA
GAAAAAAAACTGATGACGATCATTTTAATAAGCTTAAAGAGTCAATATTAAAGTTAAACG
ATAATCGTAATCAGCTGCAAAAGCAACTAGTTCCATATAACAATCCTAATCATATATATA
GTGGAACAAATAATGTTAATCAGTTTTACAGTCAACAAATGTATTTCAATTCATCGCCTT
ATTCGCAAATTCCGAGAATCGGATTTGAAAACTTTATGCCTTATGGATTTCATTCACCGC
AGCAGCAGCACCAGCTACAACAACAACAAACTTATGCATTTTCTCCACAACAATCTCAAA
TATGGAATCGCCCTTCAATTCAAGCAGCTTCTAATTCTTCTTCATCTTCTACTAACACAA
TTTATTCGCCTCTATCTACATCTTCACAAAGTTTAGTAAGAAGCCAAACGAGATTATCAG
AAACAAATTTGGCCATAAGAAAACCCGAGTCTGTTAAATCGTCACAGCAAAGCAGCAATA
ATAATTCATCATTATCAACAATAAAAGATTTGATAAATTTAGATGATGCTGATGATTTAA
ATTTCATCGCAAATATTTTACAAGCTTTTGATCCGCTAATTGCCAAAAAT
>g3960.t3 Gene=g3960 Length=144
MYFNSSPYSQIPRIGFENFMPYGFHSPQQQHQLQQQQTYAFSPQQSQIWNRPSIQAASNS
SSSSTNTIYSPLSTSSQSLVRSQTRLSETNLAIRKPESVKSSQQSSNNNSSLSTIKDLIN
LDDADDLNFIANILQAFDPLIAKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g3960.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 51 | 110 | - |
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.
