General information for g4155.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4155 is located on chr_3: 31026579..31027215 (+ 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 | g4155 | g4155.t16 | isoform | g4155.t16 | 31025823 | 31027215 |
| chr_3 | g4155 | g4155.t16 | exon | g4155.t16.exon1 | 31025823 | 31025976 |
| chr_3 | g4155 | g4155.t16 | cds | g4155.t16.CDS1 | 31025844 | 31025976 |
| chr_3 | g4155 | g4155.t16 | exon | g4155.t16.exon2 | 31026100 | 31026506 |
| chr_3 | g4155 | g4155.t16 | cds | g4155.t16.CDS2 | 31026100 | 31026506 |
| chr_3 | g4155 | g4155.t16 | exon | g4155.t16.exon3 | 31026572 | 31026627 |
| chr_3 | g4155 | g4155.t16 | cds | g4155.t16.CDS3 | 31026572 | 31026627 |
| chr_3 | g4155 | g4155.t16 | exon | g4155.t16.exon4 | 31026788 | 31027215 |
| chr_3 | g4155 | g4155.t16 | cds | g4155.t16.CDS4 | 31026788 | 31026797 |
| chr_3 | g4155 | g4155.t16 | TTS | g4155.t16 | 31027208 | 31027208 |
| chr_3 | g4155 | g4155.t16 | TSS | g4155.t16 | NA | NA |
Sequences
>g4155.t16 Gene=g4155 Length=1045
TAGATTGGCGGTATTGCTTTGATGGTAGTAGGTGGAATAGCACTAAAGAAAATTGGAGAT
GTAAAAGAAGTATTTGAGGACGGAAATCATCCTGGTATTTTTCCTGCATTCATTATAGCA
ATTGGAGCATTGGTCTTTGTTATTGCATTTTTCGGTTGTTGTGGAGCTATTCGTGAATCG
CAATGTCTTCTCAACCTCTATTCATTGTGTCTACTTTGCCTTGTCGTTTTGCAAGTAGTG
CTTGCAATTTTTGTCTTTGTCTATAATGAAGATGTTCAAAGAGGCGCCCTTAAGGGATGG
GATAAAATCTGGAGTGGTCGCCAACAAGGACCTCTTAATGATCAAGCGATTAATCAAATT
CAACGAGCTTTGCAATGCTGTGGAAGTACGACTTTTTTGGACTATGGTGTGACTTTACCT
AGTAGCTGTTGTGATCCAGAAGCATCTTCTTGTAATCAACTAGTTGCATATAAAACAGGA
TGTCGACCACAAATCAAATATGTCGTTCAAAATTCAGCTCAATGGATTGCCTATTTATCG
ATCATTATGGCCCTTGTTGAGCTGGTTGGAGTAATTTTTGGTTGCTGTCTTAGCTCAAAC
ATTCGAAATTCATCTAGATATGAGTAAAGAATCAACAATTATTCTCACACCATCAACATT
TTGGGCGATAACTATTAAATATTTAATTAACAAACATTTTTCTCATATACACACATAAAA
ACACTCCTTTATATTTTTTTCATTAGTATTGAAATATATGAGAACCTTAACAAAAAAAAT
ACATTAAAAAATCAACCTATATGCATATATCATCAGCCATAATTGCTTACTTTTATATTA
TTCATGCACGCTTAAATCATATCGTTTATGTAATCAATTAGAGATATTCGTCAAATTTAG
CGTATTTGTGTATCTCTAAATATACACATGTATTTTTTTAACGAAATAAGAGTTTCTCAT
CATATACGCTTAAGTCATTTGATGTCAGTTTCCAAAAAATACGTTTTAGTTGAAATGTAA
AAAAATAAAATATTTTTGTCAAAAA
>g4155.t16 Gene=g4155 Length=201
MVVGGIALKKIGDVKEVFEDGNHPGIFPAFIIAIGALVFVIAFFGCCGAIRESQCLLNLY
SLCLLCLVVLQVVLAIFVFVYNEDVQRGALKGWDKIWSGRQQGPLNDQAINQIQRALQCC
GSTTFLDYGVTLPSSCCDPEASSCNQLVAYKTGCRPQIKYVVQNSAQWIAYLSIIMALVE
LVGVIFGCCLSSNIRNSSRYE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g4155.t16 | CDD | cd03127 | tetraspanin_LEL | 79 | 159 | 1.41689E-13 |
| 8 | g4155.t16 | Gene3D | G3DSA:1.10.1450.10 | Tetraspanin | 82 | 163 | 9.1E-9 |
| 2 | g4155.t16 | PANTHER | PTHR19282 | TETRASPANIN | 26 | 197 | 1.9E-28 |
| 3 | g4155.t16 | PANTHER | PTHR19282:SF471 | CD63 ANTIGEN | 26 | 197 | 1.9E-28 |
| 16 | g4155.t16 | PIRSF | PIRSF002419 | Tetraspanin | 8 | 201 | 8.4E-44 |
| 5 | g4155.t16 | PRINTS | PR00259 | Transmembrane four family signature | 24 | 50 | 4.3E-25 |
| 4 | g4155.t16 | PRINTS | PR00259 | Transmembrane four family signature | 51 | 79 | 4.3E-25 |
| 6 | g4155.t16 | PRINTS | PR00259 | Transmembrane four family signature | 168 | 194 | 4.3E-25 |
| 1 | g4155.t16 | Pfam | PF00335 | Tetraspanin family | 16 | 191 | 2.5E-38 |
| 12 | g4155.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 25 | - |
| 13 | g4155.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 26 | 50 | - |
| 10 | g4155.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 51 | 56 | - |
| 14 | g4155.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 57 | 81 | - |
| 11 | g4155.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 82 | 167 | - |
| 15 | g4155.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 190 | - |
| 9 | g4155.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 191 | 201 | - |
| 21 | g4155.t16 | ProSitePatterns | PS00421 | Transmembrane 4 family signature. | 35 | 57 | - |
| 7 | g4155.t16 | SUPERFAMILY | SSF48652 | Tetraspanin | 79 | 162 | 9.15E-13 |
| 19 | g4155.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 25 | 47 | - |
| 20 | g4155.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 81 | - |
| 18 | g4155.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 190 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
## Warning: Removed 1 row(s) containing missing values (geom_path).
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.
