General information for g11679.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11679 is located on chr_1: 17763149..17763651 (- 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_1 | g11679 | g11679.t12 | isoform | g11679.t12 | 17762013 | 17763149 |
| chr_1 | g11679 | g11679.t12 | exon | g11679.t12.exon1 | 17762013 | 17762096 |
| chr_1 | g11679 | g11679.t12 | cds | g11679.t12.CDS1 | 17762038 | 17762096 |
| chr_1 | g11679 | g11679.t12 | exon | g11679.t12.exon2 | 17762158 | 17763149 |
| chr_1 | g11679 | g11679.t12 | cds | g11679.t12.CDS2 | 17762158 | 17762452 |
| chr_1 | g11679 | g11679.t12 | TSS | g11679.t12 | 17763786 | 17763786 |
| chr_1 | g11679 | g11679.t12 | TTS | g11679.t12 | NA | NA |
Sequences
>g11679.t12 Gene=g11679 Length=1076
AATAATTGTATTTAATTTTATTTTAATTATAAGAAATCATAATAAATCTTTTTCTTAATT
TCAAAATTCCTGTTCTTAATTTTAAACTCCAATTGCCTCAATGTAACCACATGCTGTTTG
AGGATCAAAAAAGAAATAGTTGTAATGTGGTGCATCCTTTTGTGATACTGTCTTAATTAT
TTCTTGAGCAACTGAGCCACCTAATATTGCGGCACTTGGTGAGATTTGTCCAAAGACATG
CTCAAAATAAATATCTGTAACTTGCTCAGAATTTGACAATGAATCTCGAATTGAAAGTAA
TTTTTTAATGTCTTCTTCTCGATTTTCAGGAAGTGGATCACGATTTTCTTGTTCACGAAA
AGTTTGAAGAATTTTCATTACGAGCGGAGCAGGTCCAGATTTTTTCATACGCTTTACAAA
TGCAGGTGAATTATAGTCGAAAGCAATTGCTGTTTCTAATGATGGAAAATTAAGAGAGCG
CTTGGATGTAGTTTTAATAGGTTCGGTTTTGACCTTTTCATTAGGTTTAGAAACTACTTT
ATGTTTGATAATGTCTTCTGCAAATTCATGTTCTTGAAGATCAGAAAAACTAAATCCAAA
TAAGCCCCACATGTCGGCAGCGAAAAATTTAATGTTATTCGCTCTGCAGATATTATCGAT
TCGAATTTGTTCACTCATTTTTCCTTCAATAATCACAATGACATCAAATTTTTTGAAAAA
TTCCTCATCTTTTTCATGCAAATTTCCAGTATCTGCTGTAAGTTCTACCATAGGATTAAG
TGCTTGTGCTCTAGGTAAACTAGCTTCAGCTCTCAACTTGTTTTCGTCAGTTCGTGGAAT
GAAAAATTGTGATGCAAAATCCAATTTTGAAACAGATTTAGAATCCAAAAAAGTCACGGA
TTTTACTCCAGCTAAAATAATATTTTTAGCAATTTCTGCTCCCAATCCATTTATGCCGGC
AATTAAGATTTTTGAATTTCGCAATCTATCAAATTTTCTAAACCCCAAAGACGAATTTGA
CGATCGTACAATTCGGCTTCTTCTGCAGTGAGTTCTTGATAGTCTTGTTCAACCAT
>g11679.t12 Gene=g11679 Length=117
MTSNFLKNSSSFSCKFPVSAVSSTIGLSACALGKLASALNLFSSVRGMKNCDAKSNFETD
LESKKVTDFTPAKIIFLAISAPNPFMPAIKIFEFRNLSNFLNPKDEFDDRTIRLLLQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11679.t12 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 38 | - |
| 6 | g11679.t12 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 17 | - |
| 7 | g11679.t12 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 18 | 33 | - |
| 8 | g11679.t12 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 34 | 38 | - |
| 4 | g11679.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 39 | 117 | - |
| 3 | g11679.t12 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 30 | 5.0 |
| 2 | g11679.t12 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 20 | - |
| 1 | g11679.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 42 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
