General information for g8185.t20
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.t20 | isoform | g8185.t20 | 28961709 | 28963602 |
| chr_2 | g8185 | g8185.t20 | exon | g8185.t20.exon1 | 28961709 | 28962952 |
| chr_2 | g8185 | g8185.t20 | TTS | g8185.t20 | 28961757 | 28961757 |
| chr_2 | g8185 | g8185.t20 | cds | g8185.t20.CDS1 | 28962289 | 28962642 |
| chr_2 | g8185 | g8185.t20 | exon | g8185.t20.exon2 | 28963537 | 28963602 |
| chr_2 | g8185 | g8185.t20 | TSS | g8185.t20 | 28963786 | 28963786 |
Sequences
>g8185.t20 Gene=g8185 Length=1310
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TGTGCTGTTGCTGGTATAGCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGAT
GACATTCGAGATGCCTTTCCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTT
CTTGGCTCGATAATCTTTATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAAT
CAGTGTATGGTTTCAACGGTACGGTAATGCATTTTCGAGTGATATGAATCAAGTCAATGA
CTAATTATTTTTTTAGTACGCATTTTTCCTACTCATATTGGTCGTTCTTCAAATTGTTAT
CGCCGTTTTCGCATTTATGTATACAGGTGAACTTGCGAAAGCTGCAGAAAATGGTTTCAA
TAAATTATGGGAAAACAGAGACACAAATAATGAAACAAGAATTGCTATCGAAGGCATACA
ACGCGGACTTCGCTGTTGTGGTTCAGCTGGACCCGCTGATTGGGGATTATTAAATATTCC
ATCTTCATGCTGTGATGATGGAGTTATAGCATGCACAGTGTCGAACGCTCATTCAGATGG
ATGTGCTACACTTCTTTCCAACTTTGTCAATGATAGTGGACTCTTGATTGCATGGTTTGC
AATTGTCTTTGCTGGTATTGAACTTGTTGGTGTAATCTTCGCCTGTTGTCGTAAGTTATA
TCTAATCTAAATCTTTTCAATTATAAATTTACTCATTTTTCTTCATTTTAGTGGCCAATT
CAATTCGAAATGCAAACAGAAGACAATATGCATAAAAGTCTACAATGTACTAATTTAATA
GAAATAGGAATTTGAAACCAAATTTTTTTTGTTTAAAAATCTATTCTTATATATCTCTAA
TTAATTTTATAGTACAGCTATAGATTGATGTCAAGAAAATAAGTTTTTTTTTCACTTATT
TATCGCTATTAATTGATAAGTAAGTTGAATACATATGTGTGTGTGTCACCATTTCTTTGG
TCTATCATCTATATCAATTCTAATTTATCAATCTTAAGTTTCTGTGTGAGCTAGGCACGG
CAGATAAGGGTCACTTCTATATATGCAAGAGAAAAGAAAACACGCCAACAAGAAATATTT
TATTTTTATTTTAGTCTTTTAAAATATGTTATCGTAAAAATTGTATATTTTTTATTCTTT
AAATGTTGTACTTTGAACACAAGTTGTTAATAAACAAAGTAAAAGTGATTAGTTCTTGAA
TAAATGCTTTAAATATCAACAATTCAAAATTTAATGGTAAATAATAATTT
>g8185.t20 Gene=g8185 Length=117
MYTGELAKAAENGFNKLWENRDTNNETRIAIEGIQRGLRCCGSAGPADWGLLNIPSSCCD
DGVIACTVSNAHSDGCATLLSNFVNDSGLLIAWFAIVFAGIELVGVIFACCRKLYLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g8185.t20 | CDD | cd03127 | tetraspanin_LEL | 2 | 86 | 9.78835E-18 |
| 6 | g8185.t20 | Gene3D | G3DSA:1.10.1450.10 | Tetraspanin | 3 | 85 | 1.8E-13 |
| 2 | g8185.t20 | PANTHER | PTHR19282 | TETRASPANIN | 8 | 114 | 4.0E-15 |
| 3 | g8185.t20 | PANTHER | PTHR19282:SF252 | TETRASPANIN | 8 | 114 | 4.0E-15 |
| 1 | g8185.t20 | Pfam | PF00335 | Tetraspanin family | 6 | 111 | 5.8E-15 |
| 8 | g8185.t20 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 89 | - |
| 9 | g8185.t20 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 90 | 111 | - |
| 7 | g8185.t20 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 112 | 117 | - |
| 5 | g8185.t20 | SUPERFAMILY | SSF48652 | Tetraspanin | 2 | 86 | 2.48E-15 |
| 4 | g8185.t20 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 89 | 111 | - |
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.
