General information for g12279.t2
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.t2 | TSS | g12279.t2 | 22118119 | 22118119 |
| chr_1 | g12279 | g12279.t2 | isoform | g12279.t2 | 22118851 | 22119987 |
| chr_1 | g12279 | g12279.t2 | exon | g12279.t2.exon1 | 22118851 | 22119987 |
| chr_1 | g12279 | g12279.t2 | cds | g12279.t2.CDS1 | 22119553 | 22119987 |
| chr_1 | g12279 | g12279.t2 | TTS | g12279.t2 | 22120048 | 22120048 |
Sequences
>g12279.t2 Gene=g12279 Length=1137
ATGTTTAGTGATTATGAAGTACGATCGAATTTCAGTAAATCAGTATGTCTTGCTCTTAAT
AAACCGATGGGAAAATATGTTGCACTAAAACGTATTTCGGCCGACAAATATTTTGATGAG
GATTTTAGAAAAATTTGTGATGAAATTACATTAATTAAAGATTTACAACATAAAAACATT
ATCAAAATTCATGCCGTATTTGTAAAAAATTTTGATTTGTGTGTTGTCTACCCATTCTTT
TGCTTCGGAAGTTGTAAAGAAGCAATTAAAAATTTCTTTTTTACTGGATTTCCTGAAATT
ATTTCTGCGCTTATACTAAAAGACGTCCTATTTGCCATCGATTATCTTCATTCGAGAGGA
ATAATTCATCGGTTAGTTTAATTTTTCAATAATATTTTATTATTACCTTTAATTATTTCT
TTTAATAGCGGTATACGAGCATCTCATATTTTATTGAATCAATCAAGAGCAGTTCTCACA
GGATTTCGTGACGCAACATCTCTTATTAGAAATGGAGAAAGAATAAAAATTTTACATGCA
CTTCCACTAAACTCAGCAAAGTCTATTAATTGGTTTGCACCTGAGTTATTAGAGCAGAAT
CTTTTGGGATATAGTGAAAAGTCAGATATTTATAGTTTAGGAATTACAACCTGTGAATTG
GCAAATGGTATAGCACCTTTTGCAGATTTACCAACTACACTCATGTTAACTGAAAAAATT
AGAGGAAATCAACCCTCACTCCTCGATTGTTCAACATTTCCATCAGAAGAGATAATTTTT
CAAGCAATGGACTCAGGCATTGGAATTGGTGAAGCATGGGCAGCAGACAATACAAGACAA
GTTTATTCTAAGCGTAAATTCTCTGATCCTTTTCATAAATTTGCTGAAGAATGCATGGCA
CGATATCCCGACAACAGACCAAGCGCCAATCAACTTTTAACTCAACATTCCTTTTTCAAA
CAAACTCGACACACAAATCTCGAAGAACAACTTAGAATCATACTTGAACCAGTGGATCTC
CATAAATTAAGCTTGGAAAATATTGCGGCAAATAAAAATAATAGTGACAGTGAAAACGAT
TTGATTCAAGAAATTGCATCGTTACAATTAAATCAAGATTCAGAATGGGATTTTTAA
>g12279.t2 Gene=g12279 Length=144
MLTEKIRGNQPSLLDCSTFPSEEIIFQAMDSGIGIGEAWAADNTRQVYSKRKFSDPFHKF
AEECMARYPDNRPSANQLLTQHSFFKQTRHTNLEEQLRIILEPVDLHKLSLENIAANKNN
SDSENDLIQEIASLQLNQDSEWDF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12279.t2 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 2 | 142 | 1.0e-07 |
| 1 | g12279.t2 | PANTHER | PTHR48014 | SERINE/THREONINE-PROTEIN KINASE FRAY2 | 1 | 115 | 0.0e+00 |
| 2 | g12279.t2 | PANTHER | PTHR48014:SF20 | STE20-RELATED KINASE ADAPTER PROTEIN ALPHA | 1 | 115 | 0.0e+00 |
| 3 | g12279.t2 | 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.
