General information for g4018.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4018 is located on chr_3: 29545823..29546678 (- 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 | g4018 | g4018.t3 | TTS | g4018.t3 | 29544340 | 29544340 |
| chr_3 | g4018 | g4018.t3 | isoform | g4018.t3 | 29544487 | 29545823 |
| chr_3 | g4018 | g4018.t3 | exon | g4018.t3.exon1 | 29544487 | 29544820 |
| chr_3 | g4018 | g4018.t3 | cds | g4018.t3.CDS1 | 29544487 | 29544820 |
| chr_3 | g4018 | g4018.t3 | exon | g4018.t3.exon2 | 29544880 | 29544969 |
| chr_3 | g4018 | g4018.t3 | cds | g4018.t3.CDS2 | 29544880 | 29544969 |
| chr_3 | g4018 | g4018.t3 | exon | g4018.t3.exon3 | 29545051 | 29545107 |
| chr_3 | g4018 | g4018.t3 | cds | g4018.t3.CDS3 | 29545051 | 29545107 |
| chr_3 | g4018 | g4018.t3 | exon | g4018.t3.exon4 | 29545263 | 29545823 |
| chr_3 | g4018 | g4018.t3 | cds | g4018.t3.CDS4 | 29545263 | 29545297 |
| chr_3 | g4018 | g4018.t3 | TSS | g4018.t3 | NA | NA |
Sequences
>g4018.t3 Gene=g4018 Length=1042
AAGAGACAGATCACGAGATCGACGAAGGTCACGTTCATATGATAGGACAAAAGATAGACG
AAGTCGAAGAAGCAGATCAAGACGCAAAAGTTATTCAAGAGAGAGACGAAGAAGTGTTTC
ACGTCGCAGACGAAGTCGATCCCGAAGAAGCCGTTCACACGATAGACGTGATCGTGATAG
AAATGATGCAAAGTCCAGAAAATCACCTGTCAAACGCAATCGAAGACGAGATCAATCGGT
ATCACTTTCAAGATCGAAGAGCAAAGAAAGACTGTCGAAAACACAAAAGAAACTTCTTGA
ATTTGCTAAAAACAATACCAAGACAACAAAAAAATCACGTTCACGTAGTCAATCAGCAAA
ATCTTCGTCTCGGAGTCCACCTAATAAGAAACGGCGTCAAAGTTCGAGTGCAAGCAGAAG
CAGCAGTTCACCAGAACGACAAAAGCGCAATGATAACAACTCCTCTAGCAAAGTTCGTCA
ATATCGTTCAAAGCGAAAATCCGATAGTGAATCAGAAGATGAGCGAATGAGAGAACGAAA
CAATCAGCACCAACGACGAAGAAATCGATCGCCAAAAAGAAACCGTTCGAGGTCGCAGCA
ACGATACAATAAAAAGCGTTCTGCAAGTAGGTCAAGATCACGACATCAGGAAGGAGGAGT
TCGTCGAAATTCACGGTCTCCGCATAATCGCAATCGCAATAAATCCAGATCTCCACGAAA
TCGTAACCATACCAGTCCTATAAAGAAAACAGAACCAGAAATTGAGCGAAATAATGATAA
GAAAACTTCTAAAAATAATGAATCATTTGAACATAATGAGAAGTCATCTAGGAATGAGCG
ATATTCACGTAAGGAAGAGGAAAATAGTCGTGATAAACGTAGAGACAGCATTCAAAGAGA
AAAGGAATCAGTCAAGAAATCTGATGATAAATACAAGAAAAGAGATGTAGTTGAATCTAA
TGACAGGGATAAGAAAGTTAAAAATCATGAAAATAATCACGAAAAAAAGCATGATCACCA
AGTAAATAAGGAGCAAAAAATT
>g4018.t3 Gene=g4018 Length=172
MRERNNQHQRRRNRSPKRNRSRSQQRYNKKRSASRSRSRHQEGGVRRNSRSPHNRNRNKS
RSPRNRNHTSPIKKTEPEIERNNDKKTSKNNESFEHNEKSSRNERYSRKEEENSRDKRRD
SIQREKESVKKSDDKYKKRDVVESNDRDKKVKNHENNHEKKHDHQVNKEQKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g4018.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 172 | - |
| 4 | g4018.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 7 | 36 | - |
| 3 | g4018.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 50 | 68 | - |
| 1 | g4018.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 69 | 172 | - |
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.
