General information for g1896.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1896 is located on chr_3: 13735448..13739381 (+ 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 | g1896 | g1896.t12 | TSS | g1896.t12 | 13734218 | 13734218 |
| chr_3 | g1896 | g1896.t12 | isoform | g1896.t12 | 13734316 | 13736582 |
| chr_3 | g1896 | g1896.t12 | exon | g1896.t12.exon1 | 13734316 | 13734388 |
| chr_3 | g1896 | g1896.t12 | cds | g1896.t12.CDS1 | 13734316 | 13734388 |
| chr_3 | g1896 | g1896.t12 | exon | g1896.t12.exon2 | 13734842 | 13735043 |
| chr_3 | g1896 | g1896.t12 | cds | g1896.t12.CDS2 | 13734842 | 13735043 |
| chr_3 | g1896 | g1896.t12 | exon | g1896.t12.exon3 | 13735172 | 13735345 |
| chr_3 | g1896 | g1896.t12 | cds | g1896.t12.CDS3 | 13735172 | 13735196 |
| chr_3 | g1896 | g1896.t12 | exon | g1896.t12.exon4 | 13735410 | 13736582 |
| chr_3 | g1896 | g1896.t12 | TTS | g1896.t12 | 13736528 | 13736528 |
Sequences
>g1896.t12 Gene=g1896 Length=1622
ATGAAGAACTATGGCATAGCTCTTGCTTTATTGTGCATTTTGAGTGCTCAATTAGTATAT
TCGGCTCCGAATACTATTGATTTATCAATGAATGTAGAACAAAAGGCACCTAAAGTTACC
ACTGAAGCTCCTATTGAAATTTCGGTTTCAATTATGACTTCAGAAACTCCAAAAAAAGAT
GAACAAGTTACACAGATCCCAATTGTTGTTGGAACTGAAATATCAGTAGTAAAGGATCAG
GAACAAAAATCAGTTGACGATAGTGACAACATTTCTCTAACTTGTATACATTTATTTTAA
GCTTCGACCACATCAACAACAAGTGTTTCTCCTCCAAATTCCGATAATACAACAACTACA
AGTACCACTACTTCAACCACCACAACAACAACACTTGCTCCTGTTCCAGATACTACAACC
ACTGCTCCAACTACATCCACGACACCAACTCCTCTTCCAACAACTACAAAGCCAACTCCT
GCACCAGACCATGATCGCTCGCAATTTTCAGTTACTGCTTTCATTGGAGGAATGGTGTTT
GCTTTTGGTATGATGGCAATTGGTTTCATTGCTTTTAAGTTCTACAAGGCTCGAAATGAG
CGTAATTATCACACTTTGTAAAGAGAGCTAATCGGAATGGATTACACAACACCTTAATCC
ATTTTCAATGTAAGAAGCCATTTATTAATCAATCTCAAGTGATTTTCCATCGAATATCTT
ACATATTTTCTTTTTAATCAAAACTTAATAATCTCGTAATGCTTTTTATATATTTAAATT
CTGTTTATTTTTTTAATTTGTCGTATGATAACGAGATTATCCTATTATTGAATTCTTTTA
ATATGTCACTATTTTCTAAACAGTTTATTCCTATCTAAAGAAATTACACTTACTTATCGA
TTAGATTTCTACGTAATATATCTCATTTACTTTATTTGATTGATGTTGCAATATAAGGCA
GAAGAAAAGCAGCTGAACATAAATTTTTCATATCATATAAAAATGTAATCTCAAAATTTA
GTAGGAAGAACAAGAATAAATATGTAAGTAATAAATACTATGCGTGTATGTAAAGATTAT
GAAAACGATAGCTATAAAATTCTGAAATGCTAAACTATAAGTAATAAGGCAGGTTCTGTT
TCACCTAAGAAATAATCTGCTATTCAAAATTGATAGCTTACTTGTGAAAATTAAGATTTT
GCTATGGATAAGATATAATCGATGATTGTATGTGAAAAGATGCAATTAAAGCCATTAAAT
AAATATTATCTCTAATAAACCAAGTCTGATTAAAAGATGGTAAAGAAAAATGTGAAGTGC
TCTTTTAAAAATAAAATTCAAAAAAAAAAAAATATTTATGACGAAATGATAAAAAATCTG
AAATATTTAAAAGATTTTGAAAGAAATATAATAAAAAAGATGTAAATTTTAAATTGATTT
ATTTTTTCAATAATAATATTACCTATATAACCATTAAGCTTTTTTGATGTGTAAAAGAAT
AATATTTAAGCGTTATAAATATATAACATACTTTAAGTCATGAATAAAGAAGTTAAAATA
AAACAAGATTGGTAATTTTCAAAAGATTTTTCTCTTTTTTTCATATGTGTATGAAAAAAT
TT
>g1896.t12 Gene=g1896 Length=99
MKNYGIALALLCILSAQLVYSAPNTIDLSMNVEQKAPKVTTEAPIEISVSIMTSETPKKD
EQVTQIPIVVGTEISVVKDQEQKSVDDSDNISLTCIHLF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g1896.t12 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 6 | g1896.t12 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 7 | g1896.t12 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 8 | g1896.t12 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 21 | - |
| 4 | g1896.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 99 | - |
| 3 | g1896.t12 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 1 | g1896.t12 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
| 2 | g1896.t12 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 21 | - |
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.
