General information for g9006.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g9006 is located on chr_2: 34499277..34500248 (- 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_2 | g9006 | g9006.t1 | isoform | g9006.t1 | 34499277 | 34500248 |
| chr_2 | g9006 | g9006.t1 | exon | g9006.t1.exon1 | 34499277 | 34500248 |
| chr_2 | g9006 | g9006.t1 | cds | g9006.t1.CDS1 | 34499277 | 34500248 |
| chr_2 | g9006 | g9006.t1 | TSS | g9006.t1 | NA | NA |
| chr_2 | g9006 | g9006.t1 | TTS | g9006.t1 | NA | NA |
Sequences
>g9006.t1 Gene=g9006 Length=972
ATGAAGGATAGACGTAAGAAGAGACGAGCTTCGCCAAAAAACAATTTGCAAAATCAAGCA
AAAAAAATTAAGAGTGTTGATAAAGATAACCTCAAAAATTCTCAAGTTGAAAATGATAAA
GCTCAAGAGTCAAATTATGATTCTGACTCAATTTCATTAAAATCAATCTCTCAAAGTGAC
GCTAATATTCAATCAAATCAAGGAAAAATTAACAAAGTGAAACCGATAATTGTTGACAGT
TCTTTATTAGCTGTGAAAAATGTGCTTAATAATTTACAACTAAAATCCAAGCCATTATTA
AAGTTAGCTGGTAAAAGAGTTCAAATCAACTGTTCATGCATGGAAGACAAGATTACTGTT
ATGAACAAGTTAAAAAGTCAGCAATATAAATATTTTTCTTTTACTGAATCCAGCGACAAA
TCCAAAATTGTCCTTCTCAAAGGATTTTATCTGGACAGCAACTTTGATATCAAGTCTCAA
ACAGAAAGTTTGAAAAATATTCTCAGTGAAAGTGGTTTAAAAGTTGGAAATGTGAAAGTT
TTTTACAAAAAAGAAGACTATGCAACTTTCTCAGTTCAACTTCAAGAACACATATCCATC
AAGGAATTGAATTTTCGATACAAAAGCATTGATTCAGTTATTGTCAGATGGGAGCCTCTT
AATAGAGAAAAGAAATTGCCAGTTCAGTGTTATAACTGTCAGCAATGGGGCCACTCCTCT
GTCAATTGTGGATATCCTTCAAGATGCGTTAAATGTGATGAAAGTCACCCTGTCGGTCAA
TGCAAGAGAGTTGACAAGGAAATTGGTAGTCCGAAGTGTGTTAATTGCCAAGGAGAACAT
CCAGCAAATTACAAGAAATGTCCAATCTTCCTTAAACACCAAAAAAAGATTGATGATATG
AAGAAAAAGTCAACAAAAGTCAACACCAGTTCTCAGCTCAACAAAGAATTAGAAATATAC
AGCAAACAATAA
>g9006.t1 Gene=g9006 Length=323
MKDRRKKRRASPKNNLQNQAKKIKSVDKDNLKNSQVENDKAQESNYDSDSISLKSISQSD
ANIQSNQGKINKVKPIIVDSSLLAVKNVLNNLQLKSKPLLKLAGKRVQINCSCMEDKITV
MNKLKSQQYKYFSFTESSDKSKIVLLKGFYLDSNFDIKSQTESLKNILSESGLKVGNVKV
FYKKEDYATFSVQLQEHISIKELNFRYKSIDSVIVRWEPLNREKKLPVQCYNCQQWGHSS
VNCGYPSRCVKCDESHPVGQCKRVDKEIGSPKCVNCQGEHPANYKKCPIFLKHQKKIDDM
KKKSTKVNTSSQLNKELEIYSKQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g9006.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 49 | - |
| 2 | g9006.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 36 | - |
| 1 | g9006.t1 | SUPERFAMILY | SSF57756 | Retrovirus zinc finger-like domains | 227 | 262 | 7.74E-5 |
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:0008270 | zinc ion binding | MF |
| GO:0003676 | nucleic acid binding | MF |
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.
