General information for g12953.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12953 is located on chr_1: 27134389..27138854 (+ 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 | g12953 | g12953.t2 | isoform | g12953.t2 | 27134242 | 27135919 |
| chr_1 | g12953 | g12953.t2 | exon | g12953.t2.exon1 | 27134242 | 27134410 |
| chr_1 | g12953 | g12953.t2 | exon | g12953.t2.exon2 | 27134639 | 27134785 |
| chr_1 | g12953 | g12953.t2 | cds | g12953.t2.CDS1 | 27134777 | 27134785 |
| chr_1 | g12953 | g12953.t2 | exon | g12953.t2.exon3 | 27134874 | 27135246 |
| chr_1 | g12953 | g12953.t2 | cds | g12953.t2.CDS2 | 27134874 | 27135246 |
| chr_1 | g12953 | g12953.t2 | exon | g12953.t2.exon4 | 27135523 | 27135919 |
| chr_1 | g12953 | g12953.t2 | cds | g12953.t2.CDS3 | 27135523 | 27135857 |
| chr_1 | g12953 | g12953.t2 | TSS | g12953.t2 | NA | NA |
| chr_1 | g12953 | g12953.t2 | TTS | g12953.t2 | NA | NA |
Sequences
>g12953.t2 Gene=g12953 Length=1086
AGTAAGTCTTTTAGTCTATTGCCATAAAATTTTTTGAACATAAAGTCGCAGTCACATGAG
CGTTTTTTATTTCATGTGAGTGCGACAAAAAAAAAAAAAAGAATGTAGAGGTGAAGTGAT
AAGTGTCATGTAAATTCTAGTTTTAAGAAATATTAGATTTAGGTTTAAGACAAATTCATC
AGCACCACCGCCTTATCCACAACAAGGCAATGCAATTCCAGCAAAGAGATTTAAACATGG
TGAGGACCAGCAGCAGCAACCACCAATTGCACGTCCTCCATTCTATCTTACCCCGCAACA
ACTTCAAATGCTTCAGGCGTTGCAGAATACACCAAATCTTACGCCACAGCAACAAAATGC
TTTGCAACAGCTGACACATCAATTTAAATTAATGCAACAACATCAACAGCAATTGAGATT
ACAGCAAGCACAGCTTCGTGGAGGTGGATTGCCAATTCGAGGTCAACCACCGCAAGCTCA
ACAATTTCCACAACAAAATCCAACAAATTTTCCAACACAGCCAATTGGTAATAGAACACC
ACAATCAGGAACTACTGCACAAACTGGATTTATGAATGATGGAAGTTTTTCACCTGCAAC
TGGTCATTCACAAGCTGGCATGCCATTTAAATCAGCTGGTGGTTTTCAACAACAGCAAAT
CACATCGACAACGAACAATCAAGATTTAAATGTAAGCGATCAAGAACTTCAAGCTTTGTT
ATCTCAACGTGATCTCACAACAACTTTTGCTGAAAATATTTTAAAACAAATTGAAAATGA
AGAGCCAATTGATTCAAAAACCAAATTGCATGAAACACTCAATGTAGATGCCATTAATCA
ACGAAATAATAAATCACCAACGATAAAATGCGAAGCGACATCAACATCGACGCAGGCTCT
TTTAAATAAACATGACATAAAATCAGAGCCGGTTGTTAAAATTGAAAAATTGGTTGAGTT
TGATAATAAAGTTGAATTCCATAATAAAATGACAGCAAAGGAAGTTTTTGAGACAGTAAA
GTAAGTTTGAAAAAAAAATTTCTTTTAAAAGTTTTTAATTAAAACTTTTTCTTTTCTTAT
TGTAGA
>g12953.t2 Gene=g12953 Length=238
MLQALQNTPNLTPQQQNALQQLTHQFKLMQQHQQQLRLQQAQLRGGGLPIRGQPPQAQQF
PQQNPTNFPTQPIGNRTPQSGTTAQTGFMNDGSFSPATGHSQAGMPFKSAGGFQQQQITS
TTNNQDLNVSDQELQALLSQRDLTTTFAENILKQIENEEPIDSKTKLHETLNVDAINQRN
NKSPTIKCEATSTSTQALLNKHDIKSEPVVKIEKLVEFDNKVEFHNKMTAKEVFETVK
Protein features from InterProScan
No InterPro annotations for this transcript.
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. There were no conditions that were differentially expressed