General information for g3108.t4
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.t4 | isoform | g3108.t4 | 22851600 | 22855013 |
| chr_3 | g3108 | g3108.t4 | TTS | g3108.t4 | 22851600 | 22851600 |
| chr_3 | g3108 | g3108.t4 | exon | g3108.t4.exon1 | 22851600 | 22853176 |
| chr_3 | g3108 | g3108.t4 | cds | g3108.t4.CDS1 | 22852972 | 22853176 |
| chr_3 | g3108 | g3108.t4 | exon | g3108.t4.exon2 | 22853358 | 22853437 |
| chr_3 | g3108 | g3108.t4 | cds | g3108.t4.CDS2 | 22853358 | 22853437 |
| chr_3 | g3108 | g3108.t4 | exon | g3108.t4.exon3 | 22853957 | 22854219 |
| chr_3 | g3108 | g3108.t4 | cds | g3108.t4.CDS3 | 22853957 | 22854219 |
| chr_3 | g3108 | g3108.t4 | exon | g3108.t4.exon4 | 22854944 | 22855013 |
| chr_3 | g3108 | g3108.t4 | cds | g3108.t4.CDS4 | 22854944 | 22855013 |
| chr_3 | g3108 | g3108.t4 | TSS | g3108.t4 | 22855265 | 22855265 |
Sequences
>g3108.t4 Gene=g3108 Length=1990
ATGTCGCATTCTCAATCGCATACACCACCAAATTTAATTAGATCTTGTGATTCACTGGGA
ATTCTTGCTGAATCGTGGGTAGAATTGACCAATAATTTAATCCAAAGTTGCTCAGATCGA
CTTACTCCACCACTTCCGTTTTCCTCTGGCGAAGAATATTTGAGACTATTGAAGGAAGCG
CAAAAAGAATCAAATAATTCAAGTCGAATTAGTTCACGGCGTGATTCACCCAAGAACTTC
AGTCCAAAAAGTCCACCAAACAGTCCAAATCCTGAACCGTGTGTTAATGATGAAGAACTC
AAAGGCGTTTTTATCAATTATTATGCGGTCAAGGATCAGGAAAAGGAGAAAGATAAGGAT
GATCATGATTGGATGTGGCAATGGAGTAGCGGCGTTGACAAATTTCCTCCAAAAGACTGG
AAATTTGAGCATCCTGAAAATGGCAATTCGAATGTGTCTTCACCAATTCCACCCGTATTA
ACCAAGGATGCTCGTACAATGAATTATTCAATGCGTCTGGCACGTGTTGGTGGCAATTCA
CTTTTCTCAAAGGAAGTTCTTTATTCACTTGTCATCACGAATGTTCTTTCTATTTTGATT
GGCGCTGGAATTGGGTAAATTACGCTATAATTTTTAATTCCATTAATTTTTCATTTTAAA
TGTTTTATTTTTAGCGTCTGGTTATCGAAACGCGGTTTCATCTTTACACGCTTGGCAGTT
GAGTGAATTGACGACTAAAATTAAAAACTTTTTCTACGCTAAATATTTAATTTTTTACAC
AATATATTTTAATTTCATACGAACACAACATTCGATGATTTGAAAATTGAAATAATTGAA
AAAAATTTAACTCAGGATGGAACAAATTTAATTTGACAATGTCCTGGGAATTTTCTAATA
TAGCTTAATTTAACTTATATTGAAAGTTTTTTAAAAATGAAAATTTTTCGAATATCAAGA
TGTGAAAGTGCAAGAATAAATCTTTTAAATGTGAATGACAATTTGGTCATTTTAAAAGAA
AGAGAGATTAGCCATGAAAAATTGGTTGAAATCACAGTAATTTATTTTTATTTTATTGCA
CATTTTTGTTGAAATGTGTCATAAATAATTTTTTTATATTTTTATTACTAACACTAATTT
TTTTTAATAAAATTATAATCATTTAATTTAAGAAGTAAAAAATATAAAAAATAATTTCAA
AATGTGTGAGAAAGAAATTGATAAGATTTATTTTCTAAATTCTATTTAATTGAAAATTTC
AAAAGAAATGTTGAACATTGCAATTAATTTATTATAAAGTGTTCATTTCTATCAAAGCTA
ATCTCCATTATGACAAGGCAGAAACGAAAATTTAAATAGGAAAATTGCAGTAAAATTGAA
TGGTAAATAATTCAAAAGGGAAAAGAAATTTTATTGAATGTGATATAAAGAAGGAAAAAA
TTAAAGTTTTTTGAAATATACTGGATATTTATTTTGAATTTCCACATTGCTTTACGTTCT
TTTTTATACAAATTTTATTTTCAATTCCGCTCAACTTTTCTAATTGATAATTTGTAATAT
AGAGACCCCAAAAGAAGTGATTAAGTATAGAAGTATTGTTTGCTTGAGTTAAATTTAAGA
TTTGAAAGTTTTATTTTTTAAATTGTAAAAAACTTTTGTTTATAATTTTTCTTGAAGTAA
CGTATTATTCAAATTTAATTCTTTTTTTCTAAAAAAATAACGGTTTTTCCTAATTGGTAA
TTTCAATGTCACGTTTTTTAGAATTTCTTTTCCCTTCAAATTAATGAAAGAAACTTTCAT
TCTAGACAGCACTTACTATTCAATTGATGTGTGATATATTAGGCATTTTGTTATTATTTT
TTGAAATCAAGTTTATTCAAAACTTCAACGGAAATAATTTATTATTATGTTTACATTTTA
TAATTTTTATTAAACACATTATTAAATTAGTTATTCTTTTGCAAAATAAAATTTTAATTT
TTATTTATTT
>g3108.t4 Gene=g3108 Length=205
MSHSQSHTPPNLIRSCDSLGILAESWVELTNNLIQSCSDRLTPPLPFSSGEEYLRLLKEA
QKESNNSSRISSRRDSPKNFSPKSPPNSPNPEPCVNDEELKGVFINYYAVKDQEKEKDKD
DHDWMWQWSSGVDKFPPKDWKFEHPENGNSNVSSPIPPVLTKDARTMNYSMRLARVGGNS
LFSKEVLYSLVITNVLSILIGAGIG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g3108.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 60 | 81 | - |
| 5 | g3108.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 60 | 95 | - |
| 2 | g3108.t4 | PANTHER | PTHR15186:SF5 | RE48077P | 21 | 205 | 3.4E-47 |
| 3 | g3108.t4 | PANTHER | PTHR15186 | RE48077P | 21 | 205 | 3.4E-47 |
| 1 | g3108.t4 | Pfam | PF06553 | BNIP3 | 21 | 205 | 5.9E-49 |
| 6 | g3108.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 185 | - |
| 8 | g3108.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 186 | 204 | - |
| 7 | g3108.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 205 | 205 | - |
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.
