General information for g12060.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12060 is located on chr_1: 20694034..20697136 (- 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 | g12060 | g12060.t8 | TTS | g12060.t8 | 20693040 | 20693040 |
| chr_1 | g12060 | g12060.t8 | isoform | g12060.t8 | 20693099 | 20693901 |
| chr_1 | g12060 | g12060.t8 | exon | g12060.t8.exon1 | 20693099 | 20693901 |
| chr_1 | g12060 | g12060.t8 | cds | g12060.t8.CDS1 | 20693099 | 20693611 |
| chr_1 | g12060 | g12060.t8 | TSS | g12060.t8 | 20694064 | 20694064 |
Sequences
>g12060.t8 Gene=g12060 Length=803
AGAATTTAATAAAAGAAAATATAGAAATTTTTAAAATACAACTACCAAGAAAAACTTCTC
TTTTCATAAAATCGTCTGAAGGAATTTATGAATTGTTGCAATTTAATGAAAAACATAGAT
GCTTTTTTATTGAAAATACTGTTTGTAGTAATGGAAAAATCTATGTTGCAACCAAATTTG
ATCCTCTTTATGCTTTTATTCAATTACTTGAGGTAAATTGCAAAAATCGTGCACAACCAA
TAGATCAACTGCTTGAAAATAAGACAATAATATTCTCAGACTTTTTGAAAATGAGTCAAA
TGAGGCTTATAGCCGACCAAAAAGGGTCAGACAATTTAAAAGCATTTATCTTCAATGAAG
AGAAGGTATTAAAATGGCTAAAAATCAAATTTGCTAGAATACAAGAATCACTCAAGCAGC
AAAAGATCATTTTTAGCGGATCATCGTCTCTTAATTTTGTTCAGTCAACATTAAATAACG
ATCAAATAGAAAATGATGATGAGATTGCTGCTACAGCATTAGGCATAATTTCAGAATACA
TTTCGCTTGACCTTTATGAGAAACTTGATGCATTTTATGGTATTAGCGAAAAGTCAAAAG
AACCTATCTCGCAAAAACGAAAGTCTGGTGTAAATGAAAAAGAGCCAGACAGTAAGAAAA
TCAAGACAGAGGACGATGATGAAATAACAAAGGAAAATAAAAAGTCCCAAATCACATCTA
AAAGTGTCTCAAAAAATGTTGCAAAACTCGAAAAAGCTGCAAAAGGTACAAAATCAATAA
GCTCTTTCTTTGCTAAAAAGTAG
>g12060.t8 Gene=g12060 Length=170
MSQMRLIADQKGSDNLKAFIFNEEKVLKWLKIKFARIQESLKQQKIIFSGSSSLNFVQST
LNNDQIENDDEIAATALGIISEYISLDLYEKLDAFYGISEKSKEPISQKRKSGVNEKEPD
SKKIKTEDDDEITKENKKSQITSKSVSKNVAKLEKAAKGTKSISSFFAKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12060.t8 | Gene3D | G3DSA:1.10.20.120 | - | 1 | 96 | 4.7E-21 |
| 2 | g12060.t8 | MobiDBLite | mobidb-lite | consensus disorder prediction | 102 | 145 | - |
| 3 | g12060.t8 | MobiDBLite | mobidb-lite | consensus disorder prediction | 102 | 138 | - |
| 1 | g12060.t8 | PANTHER | PTHR13383 | RIBONUCLEASE H2 SUBUNIT B | 3 | 170 | 6.7E-17 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0032299 | ribonuclease H2 complex | CC |
KEGG
Orthology
- This transcript has been annotated with K10744 (ribonuclease H2 subunit B)
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.
