General information for g8185.t53
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g8185 is located on chr_2: 28963057..28964797 (- 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_2 | g8185 | g8185.t53 | TTS | g8185.t53 | 28961757 | 28961757 |
| chr_2 | g8185 | g8185.t53 | isoform | g8185.t53 | 28962204 | 28963602 |
| chr_2 | g8185 | g8185.t53 | exon | g8185.t53.exon1 | 28962204 | 28962247 |
| chr_2 | g8185 | g8185.t53 | cds | g8185.t53.CDS1 | 28962204 | 28962247 |
| chr_2 | g8185 | g8185.t53 | exon | g8185.t53.exon2 | 28962309 | 28962689 |
| chr_2 | g8185 | g8185.t53 | cds | g8185.t53.CDS2 | 28962309 | 28962642 |
| chr_2 | g8185 | g8185.t53 | exon | g8185.t53.exon3 | 28962761 | 28962952 |
| chr_2 | g8185 | g8185.t53 | exon | g8185.t53.exon4 | 28963537 | 28963602 |
| chr_2 | g8185 | g8185.t53 | TSS | g8185.t53 | 28963786 | 28963786 |
Sequences
>g8185.t53 Gene=g8185 Length=683
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TGTGCTGTTGCTGGTATAGCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGAT
GACATTCGAGATGCCTTTCCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTT
CTTGGCTCGATAATCTTTATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAAT
CAGTGTATGGTTTCAACGTACTCATATTGGTCGTTCTTCAAATTGTTATCGCCGTTTTCG
CATTTATGTATACAGGTGAACTTGCGAAAGCTGCAGAAAATGGTTTCAATAAATTATGGG
AAAACAGAGACACAAATAATGAAACAAGAATTGCTATCGAAGGCATACAACGCGGACTTC
GCTGTTGTGGTTCAGCTGGACCCGCTGATTGGGGATTATTAAATATTCCATCTTCATGCT
GTGATGATGGAGTTATAGCATGCACAGTGTCGAACGCTCATTCAGATGGATGTGCTACAC
TTCTTTCCAACTTTGTCAATGATAGTGGACTCTTGATTGCATGGTTTGCAATTGTCTTTG
CTGGTATTGAACTTGTTGGTGTAATCTTCGCCTGTTGTCTGGCCAATTCAATTCGAAATG
CAAACAGAAGACAATATGCATAA
>g8185.t53 Gene=g8185 Length=125
MYTGELAKAAENGFNKLWENRDTNNETRIAIEGIQRGLRCCGSAGPADWGLLNIPSSCCD
DGVIACTVSNAHSDGCATLLSNFVNDSGLLIAWFAIVFAGIELVGVIFACCLANSIRNAN
RRQYA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g8185.t53 | CDD | cd03127 | tetraspanin_LEL | 2 | 86 | 9.17316E-18 |
| 6 | g8185.t53 | Gene3D | G3DSA:1.10.1450.10 | Tetraspanin | 3 | 85 | 2.2E-13 |
| 2 | g8185.t53 | PANTHER | PTHR19282 | TETRASPANIN | 8 | 112 | 9.1E-15 |
| 3 | g8185.t53 | PANTHER | PTHR19282:SF252 | TETRASPANIN | 8 | 112 | 9.1E-15 |
| 1 | g8185.t53 | Pfam | PF00335 | Tetraspanin family | 6 | 114 | 2.5E-16 |
| 8 | g8185.t53 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 89 | - |
| 9 | g8185.t53 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 90 | 113 | - |
| 7 | g8185.t53 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 114 | 125 | - |
| 5 | g8185.t53 | SUPERFAMILY | SSF48652 | Tetraspanin | 2 | 86 | 3.14E-15 |
| 4 | g8185.t53 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 90 | 112 | - |
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