General information for g200.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Histone H2B 7.
Parent gene
- The parent gene g200 is located on chr_3: 1676815..1677191 (- 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_3 | g200 | g200.t1 | isoform | g200.t1 | 1676815 | 1677191 |
| chr_3 | g200 | g200.t1 | exon | g200.t1.exon1 | 1676815 | 1677039 |
| chr_3 | g200 | g200.t1 | cds | g200.t1.CDS1 | 1676815 | 1677039 |
| chr_3 | g200 | g200.t1 | exon | g200.t1.exon2 | 1677096 | 1677191 |
| chr_3 | g200 | g200.t1 | cds | g200.t1.CDS2 | 1677096 | 1677191 |
| chr_3 | g200 | g200.t1 | TSS | g200.t1 | NA | NA |
| chr_3 | g200 | g200.t1 | TTS | g200.t1 | NA | NA |
Sequences
>g200.t1 Gene=g200 Length=321
ATGGCTGATGGAAAGGAAACAAATACAGTTAATGTCAATAGAAAAGGTAAACCTAAACGG
CTCAATCCAGAAAGATTCTCGATTTTTGTTTATAAAATATTGAAGGAACTTCATCCTAAC
ACTGAAATATCGCGTCATGCAATGGCAAAAATGAATTGTATTATCCATTATGTTTACGGA
CGTATCGAAGATGAAATCAATCGTTTGAGCAATTTGAATGAAATTGATATAATTACAACG
CGTGAAGTACAACGAGCTGTTCGTTTAGTTTTCAGTGGTGATTTATCTGATCATGCTGTC
CGTGCAGAAATCAAGCGGTAG
>g200.t1 Gene=g200 Length=106
MADGKETNTVNVNRKGKPKRLNPERFSIFVYKILKELHPNTEISRHAMAKMNCIIHYVYG
RIEDEINRLSNLNEIDIITTREVQRAVRLVFSGDLSDHAVRAEIKR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g200.t1 | Gene3D | G3DSA:1.10.20.10 | Histone | 2 | 106 | 0 |
| 1 | g200.t1 | PANTHER | PTHR23428:SF252 | HISTONE H2B | 4 | 104 | 0 |
| 2 | g200.t1 | PANTHER | PTHR23428 | HISTONE H2B | 4 | 104 | 0 |
| 5 | g200.t1 | PRINTS | PR00621 | Histone H2B signature | 26 | 44 | 0 |
| 6 | g200.t1 | PRINTS | PR00621 | Histone H2B signature | 45 | 65 | 0 |
| 4 | g200.t1 | PRINTS | PR00621 | Histone H2B signature | 67 | 84 | 0 |
| 3 | g200.t1 | PRINTS | PR00621 | Histone H2B signature | 84 | 97 | 0 |
| 8 | g200.t1 | SMART | SM00427 | h2b3 | 16 | 104 | 0 |
| 7 | g200.t1 | SUPERFAMILY | SSF47113 | Histone-fold | 7 | 102 | 0 |
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:0003677 | DNA binding | MF |
| GO:0046982 | protein heterodimerization activity | MF |
| GO:0000786 | nucleosome | CC |
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