General information for g3108.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3108 is located on chr_3: 22853439..22855709 (- 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 | g3108 | g3108.t2 | isoform | g3108.t2 | 22847378 | 22854219 |
| chr_3 | g3108 | g3108.t2 | exon | g3108.t2.exon1 | 22847378 | 22847387 |
| chr_3 | g3108 | g3108.t2 | exon | g3108.t2.exon2 | 22852532 | 22852915 |
| chr_3 | g3108 | g3108.t2 | cds | g3108.t2.CDS1 | 22852864 | 22852915 |
| chr_3 | g3108 | g3108.t2 | exon | g3108.t2.exon3 | 22852976 | 22853176 |
| chr_3 | g3108 | g3108.t2 | cds | g3108.t2.CDS2 | 22852976 | 22853176 |
| chr_3 | g3108 | g3108.t2 | exon | g3108.t2.exon4 | 22853358 | 22853437 |
| chr_3 | g3108 | g3108.t2 | cds | g3108.t2.CDS3 | 22853358 | 22853398 |
| chr_3 | g3108 | g3108.t2 | exon | g3108.t2.exon5 | 22853957 | 22854219 |
| chr_3 | g3108 | g3108.t2 | TSS | g3108.t2 | 22854447 | 22854447 |
| chr_3 | g3108 | g3108.t2 | TTS | g3108.t2 | NA | NA |
Sequences
>g3108.t2 Gene=g3108 Length=938
AATCGTGGGTAGAATTGACCAATAATTTAATCCAAAGTTGCTCAGATCGACTTACTCCAC
CACTTCCGTTTTCCTCTGGCGAAGAATATTTGAGACTATTGAAGGAAGCGCAAAAAGAAT
CAAATAATTCAAGTCGAATTAGTTCACGGCGTGATTCACCCAAGAACTTCAGTCCAAAAA
GTCCACCAAACAGTCCAAATCCTGAACCGTGTGTTAATGATGAAGAACTCAAAGGCGTTT
TTATCAATTATTATGCGGTCAAGGATCAGGAAAAGGAGAAAGATAAGGATGATCATGATT
GGATGTGGCAATGGAGTAGCGGCGTTGACAAATTTCCTCCAAAAGACTGGAAATTTGAGC
ATCCTGAAAATGGCAATTCGAATGTGTCTTCACCAATTCCACCCGTATTAACCAAGGATG
CTCGTACAATGAATTATTCAATGCGTCTGGCACGTGTTGGTGGCAATTCACTTTTCTCAA
AGGAAGTTCTTTATTCACTTGTCATCACGAATGTTCTTTCTATTTTGATTGGCGCTGGAA
TTGGCGTCTGGTTATCGAAACGCGGTTTCATCTTTACACGCTTGGCAGTTGAGTGAATTG
ACGACTAAAATTAAAAACTTTTTCTACGCTAAATATTTAATTTTTTACACAATATATTTT
AATTTCATACGAACACAACATTCGATGATTTGAAAATTGAAATAATTGAAAAAAATTTAA
CTCAGGATGGAACAAATTTAATTTGACAATGTCCTGGGAATTTTCTAATATAGCTTAATT
TAACTTATATTGAAAGTTTTTTAAAAATGAAAATTTTTCGAATATCAAGATGTGAAAGTG
CAAGAATAAATCTTTTAAATGTGAATGACAATTTGGTCATTTTAAAAGAAAGAGAGATTA
GCCATGAAAAATTGGTTGAAATCACAGTATTTATATTT
>g3108.t2 Gene=g3108 Length=97
MWQWSSGVDKFPPKDWKFEHPENGNSNVSSPIPPVLTKDARTMNYSMRLARVGGNSLFSK
EVLYSLVITNVLSILIGAGIGVWLSKRGFIFTRLAVE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3108.t2 | PANTHER | PTHR15186:SF5 | RE48077P | 1 | 92 | 1.2E-23 |
| 3 | g3108.t2 | PANTHER | PTHR15186 | RE48077P | 1 | 92 | 1.2E-23 |
| 1 | g3108.t2 | Pfam | PF06553 | BNIP3 | 1 | 93 | 6.5E-27 |
| 6 | g3108.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 61 | - |
| 7 | g3108.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 62 | 84 | - |
| 5 | g3108.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 85 | 97 | - |
| 4 | g3108.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 62 | 84 | - |
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:0005740 | mitochondrial envelope | CC |
| GO:0043065 | positive regulation of apoptotic process | BP |
| 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.
