General information for g1928.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1928 is located on chr_3: 13948055..13950577 (- 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 | g1928 | g1928.t3 | isoform | g1928.t3 | 13943615 | 13945700 |
| chr_3 | g1928 | g1928.t3 | exon | g1928.t3.exon1 | 13943615 | 13944248 |
| chr_3 | g1928 | g1928.t3 | TTS | g1928.t3 | 13943620 | 13943620 |
| chr_3 | g1928 | g1928.t3 | cds | g1928.t3.CDS1 | 13944038 | 13944248 |
| chr_3 | g1928 | g1928.t3 | exon | g1928.t3.exon2 | 13945425 | 13945528 |
| chr_3 | g1928 | g1928.t3 | cds | g1928.t3.CDS2 | 13945425 | 13945528 |
| chr_3 | g1928 | g1928.t3 | exon | g1928.t3.exon3 | 13945683 | 13945700 |
| chr_3 | g1928 | g1928.t3 | cds | g1928.t3.CDS3 | 13945683 | 13945697 |
| chr_3 | g1928 | g1928.t3 | TSS | g1928.t3 | NA | NA |
Sequences
>g1928.t3 Gene=g1928 Length=756
TCTATGCAGGTAATTATTGATGTCTGGGCATATCGTGCTGTGGGAATTCCCATTATGAGA
ATTTATACTATTAATCCGCGTGGGGAATTGAAACACGAATTGACACAAACATTCCAATCA
ACATACTGTTCAATGACTTATATAGTTGATCAATTATTTCCACCAATCAAATTAACAGAT
GAAGATGATGATATCGAATATACATCGTTTAATTTTTGGAGAGAACCAGTGGCTGATATC
GAGGAAGTTAGCACTTCAGGAGAATCTACGCCAAGTAACACATCACTCCAAGCTATTCAA
TCCAGACCATTAGCAACAATTCTGGAAAATTAAACATTTTATAATCAAATTTATTGCAAG
CTATGATTGTGAGGCAAAAAGCTTATTAAATGTGCGAGGGAAATGCCTATACTATTACAC
TATTATCTTATTAGCTTATAATCAAAAAAAAATGCTTTAGAAAAATAGCAATCAGTACAA
CACAAGATCATGGTTTGTTCTATTGAGAGATAATTTAAAGTTGCCTTTTAAAATAATTTT
AGCTTCTTTACAAAAAGAACACTTTCTTCAATTTTCTGAAAATTATTATTTCTAATAATT
TTATTGAATGCTTTCAGTTCAAATTATTAAGTTCAGATTTTAGCGCATTTTTTTATGAGT
AAAATACAAGTGAAAATGATTTTTTTGTGATATTTTTTTATTACCAATATTATTACTGTC
ATTCAATAAAGAATTTATGGCTATACTACTTAAAAA
>g1928.t3 Gene=g1928 Length=109
MQVIIDVWAYRAVGIPIMRIYTINPRGELKHELTQTFQSTYCSMTYIVDQLFPPIKLTDE
DDDIEYTSFNFWREPVADIEEVSTSGESTPSNTSLQAIQSRPLATILEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g1928.t3 | Coils | Coil | Coil | 107 | 109 | - |
| 2 | g1928.t3 | PANTHER | PTHR12181:SF12 | GH19076P | 6 | 80 | 2.3E-21 |
| 3 | g1928.t3 | PANTHER | PTHR12181 | LIPIN | 6 | 80 | 2.3E-21 |
| 1 | g1928.t3 | Pfam | PF08235 | LNS2 (Lipin/Ned1/Smp2) | 5 | 53 | 1.2E-12 |
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.
