General information for g12279.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12279 is located on chr_1: 22119987..22122341 (+ 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 | g12279 | g12279.t3 | TSS | g12279.t3 | 22118119 | 22118119 |
| chr_1 | g12279 | g12279.t3 | isoform | g12279.t3 | 22118851 | 22119987 |
| chr_1 | g12279 | g12279.t3 | exon | g12279.t3.exon1 | 22118851 | 22119146 |
| chr_1 | g12279 | g12279.t3 | exon | g12279.t3.exon2 | 22119296 | 22119987 |
| chr_1 | g12279 | g12279.t3 | cds | g12279.t3.CDS1 | 22119553 | 22119987 |
| chr_1 | g12279 | g12279.t3 | TTS | g12279.t3 | 22120048 | 22120048 |
Sequences
>g12279.t3 Gene=g12279 Length=988
ATGTTTAGTGATTATGAAGTACGATCGAATTTCAGTAAATCAGTATGTCTTGCTCTTAAT
AAACCGATGGGAAAATATGTTGCACTAAAACGTATTTCGGCCGACAAATATTTTGATGAG
GATTTTAGAAAAATTTGTGATGAAATTACATTAATTAAAGATTTACAACATAAAAACATT
ATCAAAATTCATGCCGTATTTGTAAAAAATTTTGATTTGTGTGTTGTCTACCCATTCTTT
TGCTTCGGAAGTTGTAAAGAAGCAATTAAAAATTTCTTTTTTACTGGATTTCCTGAATAT
TTTATTGAATCAATCAAGAGCAGTTCTCACAGGATTTCGTGACGCAACATCTCTTATTAG
AAATGGAGAAAGAATAAAAATTTTACATGCACTTCCACTAAACTCAGCAAAGTCTATTAA
TTGGTTTGCACCTGAGTTATTAGAGCAGAATCTTTTGGGATATAGTGAAAAGTCAGATAT
TTATAGTTTAGGAATTACAACCTGTGAATTGGCAAATGGTATAGCACCTTTTGCAGATTT
ACCAACTACACTCATGTTAACTGAAAAAATTAGAGGAAATCAACCCTCACTCCTCGATTG
TTCAACATTTCCATCAGAAGAGATAATTTTTCAAGCAATGGACTCAGGCATTGGAATTGG
TGAAGCATGGGCAGCAGACAATACAAGACAAGTTTATTCTAAGCGTAAATTCTCTGATCC
TTTTCATAAATTTGCTGAAGAATGCATGGCACGATATCCCGACAACAGACCAAGCGCCAA
TCAACTTTTAACTCAACATTCCTTTTTCAAACAAACTCGACACACAAATCTCGAAGAACA
ACTTAGAATCATACTTGAACCAGTGGATCTCCATAAATTAAGCTTGGAAAATATTGCGGC
AAATAAAAATAATAGTGACAGTGAAAACGATTTGATTCAAGAAATTGCATCGTTACAATT
AAATCAAGATTCAGAATGGGATTTTTAA
>g12279.t3 Gene=g12279 Length=144
MLTEKIRGNQPSLLDCSTFPSEEIIFQAMDSGIGIGEAWAADNTRQVYSKRKFSDPFHKF
AEECMARYPDNRPSANQLLTQHSFFKQTRHTNLEEQLRIILEPVDLHKLSLENIAANKNN
SDSENDLIQEIASLQLNQDSEWDF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12279.t3 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 2 | 142 | 1.0e-07 |
| 1 | g12279.t3 | PANTHER | PTHR48014 | SERINE/THREONINE-PROTEIN KINASE FRAY2 | 1 | 115 | 0.0e+00 |
| 2 | g12279.t3 | PANTHER | PTHR48014:SF20 | STE20-RELATED KINASE ADAPTER PROTEIN ALPHA | 1 | 115 | 0.0e+00 |
| 3 | g12279.t3 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 50 | 115 | 4.8e-06 |
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.
