General information for g11892.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11892 is located on chr_1: 19105383..19106286 (+ 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 | g11892 | g11892.t2 | isoform | g11892.t2 | 19091415 | 19092176 |
| chr_1 | g11892 | g11892.t2 | exon | g11892.t2.exon1 | 19091415 | 19092176 |
| chr_1 | g11892 | g11892.t2 | cds | g11892.t2.CDS1 | 19091415 | 19092176 |
| chr_1 | g11892 | g11892.t2 | TTS | g11892.t2 | 19092304 | 19092304 |
| chr_1 | g11892 | g11892.t2 | TSS | g11892.t2 | NA | NA |
Sequences
>g11892.t2 Gene=g11892 Length=762
ATGAAATTTATCATTGTTAGTTTAATTGGAATTCCTGCAAGCGGAAAAAGCACACTTTCG
AGCATTATTTCAAAATTGTCAGCAGAATGCTTGCTAAATGCAAATGTGATAATTCTAAAT
TTTGACGATTTGATTGAAATTGATTATGGAAATATTTCTGATGGTGATTACAAAAAATCA
CGTGATTTTCTTTTTAATGAGATAGAAAAGTTGATAAAAATGTTGATGGATGAAAAAAAT
CCATTCAAATGGGCGCCAATAATTGAACAATCTGCTCTTAAAGTTCCATTGAATTTTATA
ACTATCAAAGAAGCAAATTCAAGCACGCTAATAATTCTTGACGACAATATGTATTATCGT
AGTATGAGACAACGAGCGAGACTCATTTCTAAGAATTGTCATTGTGAGCATTTTCAAATT
TTTGTCAAATCAGCATTATATGATGCGATTGAGAGAAACAAGAAACGAAAATCATCAGTT
GATGTTGGCGTAATTCAGAAAATGTTTAATGACATGGAAATTCCAATCAATGCGCGAACA
ATCAATGTTGATATTATGAATCTTAATGAAGAAACCTTTTTAAATGAGTTGAAAGATCGA
ATTAAAGAGCCAGAAGTATTAACAGAAGAACCACAAATGAAAGTTCCACAAGACCAATCA
ATTGTTCATGAAATAGATTTGATGACAAGAAAAGAAATTGGAATCGAAATTAAAAGAATT
GGAAACAAAGGAAATTTAAAGGAAATTTCAGAAAAATTAAAT
>g11892.t2 Gene=g11892 Length=254
MKFIIVSLIGIPASGKSTLSSIISKLSAECLLNANVIILNFDDLIEIDYGNISDGDYKKS
RDFLFNEIEKLIKMLMDEKNPFKWAPIIEQSALKVPLNFITIKEANSSTLIILDDNMYYR
SMRQRARLISKNCHCEHFQIFVKSALYDAIERNKKRKSSVDVGVIQKMFNDMEIPINART
INVDIMNLNEETFLNELKDRIKEPEVLTEEPQMKVPQDQSIVHEIDLMTRKEIGIEIKRI
GNKGNLKEISEKLN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11892.t2 | PANTHER | PTHR20873 | L-SERYL-TRNA(SEC) KINASE | 3 | 253 | 2.2E-29 |
| 1 | g11892.t2 | Pfam | PF13671 | AAA domain | 6 | 172 | 1.7E-6 |
| 5 | g11892.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 15 | - |
| 6 | g11892.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 7 | g11892.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 11 | - |
| 8 | g11892.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 15 | - |
| 4 | g11892.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 16 | 254 | - |
| 3 | g11892.t2 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 5 | 203 | 5.09E-14 |
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 transcript has been annotated with K10837 (O-phosphoseryl-tRNA(Sec) kinase)
Pathway
- This transcript belongs to the following pathways
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. There were no conditions that were differentially expressed