General information for g4154.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4154 is located on chr_3: 31019483..31020175 (+ 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 | g4154 | g4154.t3 | isoform | g4154.t3 | 31019072 | 31020175 |
| chr_3 | g4154 | g4154.t3 | exon | g4154.t3.exon1 | 31019072 | 31020044 |
| chr_3 | g4154 | g4154.t3 | cds | g4154.t3.CDS1 | 31019499 | 31020044 |
| chr_3 | g4154 | g4154.t3 | exon | g4154.t3.exon2 | 31020098 | 31020175 |
| chr_3 | g4154 | g4154.t3 | cds | g4154.t3.CDS2 | 31020098 | 31020175 |
| chr_3 | g4154 | g4154.t3 | TTS | g4154.t3 | 31020285 | 31020285 |
| chr_3 | g4154 | g4154.t3 | TSS | g4154.t3 | NA | NA |
Sequences
>g4154.t3 Gene=g4154 Length=1051
ATGGTTAAATTAACATGTGCAGCTAGTTTACTTAAATATATAATTTTTAGTTTTAATTTT
ATTTGTGCAGTAAGTAAATTTATTTTTAAAAAATTAATTTATACAAATTTTAATTAAACT
ACATATTTGAAATTTGTCTTATAAAAAAAGTTTTTTAAGATAAGTTCTTTATAATGTATC
TTTCTATCATATAACAATTGATTCAAAGGGTTATATTTCACATTTATCACGTAATTCAAA
GTACAAAAATTATTTAATAACATAAACTAGGTAGATAAATTGTTTGGCAGATAAATAATT
TTCAACTTCAGGGTTTAGTTGCTTATAATTTACTTCCCTCTTTGATATTATTATCATCAT
CAAATTATTCAAACACCGGCATGTTAATTCTTTTTTCTTCTAATTTTAGATTTTCGGAAT
TATTTTTATGTTTCATGGTGCACTAACGCTCGTCAAAATCGGTGAAATAAGGTCATTTTT
GCAAAATAAGCATTTAGATGATGCATCACTTGTTCCAACAATTATAATATGTGTAGGAAT
ATTCATTTTTATTATTTCATTTCTTGGATGCTGTGGTGCAATGAAACAACAGAGAATATT
TCTCGAAACCTATTCGATATGTCTCCTTGTACTGGTGATGATGCAAATTTTACTTGCTCT
TCTGATTTTTTTATTTTTGGAAGATATTAATCGTGATAGTTTGAAAAGTTTTACAAAAAT
GTGGCGTTTAAGATTTATGCCAGATAACCAAATGATGATTGATATGGTTCAAACTTCAAT
TGAATGTTGTGGCTCAAATAACATGGATGACTATAGTTTTGATCGAATACCACTTTCATG
TTGTAAAAAGAATGTAGATGCATGCTCAAAAGATATTGCATTTCCATCAGGCTGTAAATT
ACTCTTAAAAAATGCAATAAATTCATCGGGACATACAATTTCATACTTATGTATAATTAC
CGCTATTTTCGAGTTTTTAGCATCAATGATGGGATTTTTACTAAGTTCGCAGATAAGGAA
AAATCATGGAAAAGGACGATGTTGTACTTAA
>g4154.t3 Gene=g4154 Length=207
MFHGALTLVKIGEIRSFLQNKHLDDASLVPTIIICVGIFIFIISFLGCCGAMKQQRIFLE
TYSICLLVLVMMQILLALLIFLFLEDINRDSLKSFTKMWRLRFMPDNQMMIDMVQTSIEC
CGSNNMDDYSFDRIPLSCCKKNVDACSKDIAFPSGCKLLLKNAINSSGHTISYLCIITAI
FEFLASMMGFLLSSQIRKNHGKGRCCT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g4154.t3 | CDD | cd03127 | tetraspanin_LEL | 85 | 166 | 3.95251E-12 |
| 8 | g4154.t3 | Gene3D | G3DSA:1.10.1450.10 | Tetraspanin | 85 | 156 | 1.9E-9 |
| 2 | g4154.t3 | PANTHER | PTHR19282 | TETRASPANIN | 25 | 200 | 3.3E-23 |
| 3 | g4154.t3 | PANTHER | PTHR19282:SF471 | CD63 ANTIGEN | 25 | 200 | 3.3E-23 |
| 16 | g4154.t3 | PIRSF | PIRSF002419 | Tetraspanin | 4 | 207 | 1.3E-30 |
| 6 | g4154.t3 | PRINTS | PR00259 | Transmembrane four family signature | 26 | 52 | 3.1E-15 |
| 4 | g4154.t3 | PRINTS | PR00259 | Transmembrane four family signature | 53 | 81 | 3.1E-15 |
| 5 | g4154.t3 | PRINTS | PR00259 | Transmembrane four family signature | 170 | 196 | 3.1E-15 |
| 1 | g4154.t3 | Pfam | PF00335 | Tetraspanin family | 15 | 193 | 4.5E-31 |
| 12 | g4154.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 27 | - |
| 13 | g4154.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 28 | 52 | - |
| 10 | g4154.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 53 | 63 | - |
| 15 | g4154.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 64 | 84 | - |
| 11 | g4154.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 85 | 170 | - |
| 14 | g4154.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 171 | 192 | - |
| 9 | g4154.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 193 | 207 | - |
| 7 | g4154.t3 | SUPERFAMILY | SSF48652 | Tetraspanin | 83 | 166 | 3.66E-11 |
| 18 | g4154.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 27 | 49 | - |
| 19 | g4154.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 62 | 84 | - |
| 20 | g4154.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 170 | 192 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016021 | integral component of membrane | CC |
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. There were no conditions that were differentially expressed