General information for g7345.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ribosome biogenesis protein BMS1-like protein.
Parent gene
- The parent gene g7345 is located on chr_2: 23172882..23174055 (+ 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 | g7345 | g7345.t2 | isoform | g7345.t2 | 23172882 | 23174055 |
| chr_2 | g7345 | g7345.t2 | exon | g7345.t2.exon1 | 23172882 | 23174055 |
| chr_2 | g7345 | g7345.t2 | cds | g7345.t2.CDS1 | 23173078 | 23174055 |
| chr_2 | g7345 | g7345.t2 | TTS | g7345.t2 | 23174123 | 23174123 |
| chr_2 | g7345 | g7345.t2 | TSS | g7345.t2 | NA | NA |
Sequences
>g7345.t2 Gene=g7345 Length=1174
GAATGAAGAGAATGTTGGATATGTTAGTGGTGAAGTCAAAAAGCATCGCTGGTACAGAAA
ACTTTTAAAAACTGGTGATCCTTTAATAATCTCACTTGGCTGGCGACGTTTTCAAACTGT
TCCAATTTATGCAAAACGAGAAGATGATTTAAAGCATCGATATTTGAAATATACACCTAA
TCATGTTGCATGTCATATGAGTTTTTATGGTCCTATTACTCCACAAGGTACAGGTTTTTT
CGCAGTTCAAACAATTTCAAATAATGTTAAAGAGCTTAAAAGAATTGGCTTTCGAATTGC
TGCTACTGGTTCTATTAAAGAAGTTGACAAATCAACAACAATTCTCAAAAAGTTAAAACT
TGTTGGTACACCAATTAAAATTTTTCAAAAATCTGCATTCATCACTGGTATGTTTAACAG
TGAATTAGAAGTATCGAAATTCGCTGGTGCAAAGATTAAAACCGTGTCAGGAATTAGAGG
TCAAATTAAAAAATCAATTAGTTCAATTAGAGCAGACAATTCTGGTAAGCATTTGAGTGT
GGAACCAGGAACATACCGTGCAACGTTTGAAGATAAAATTAAAATAAGTGATATTGTATT
CTGCCGAACTTGGTTTAAAGTTGATGTGCCACAATTTTATGCTCCAATTACAAATATGCT
TTTGCCACAAGAAAAGAAATCACAATGGGAAGGAATGAAGACACTTGGACAACTAAAACG
TGAACGTAACATAAAAGCAGAAGTTGATGAAGATCATTTGTACAAACCAATCGAAAGACC
ACCACCTAGTTTCAAGCCACTTGTGATTCCAGCATCACTTCAAAAAGCTCTTCCTTATAA
AGATAAACCGAAGAAAGGTCCACTTAATCCTAAACAAAAGTTTGAAGAGACACGAGTAGC
TGTTGTGCATTCACCGCATGAACAAAAAGTCGCAAAAATGATGAACATGTTGAAGACAAA
TTATATAGCAAAGAAAAACAAGCAAAAAGAACGTTCAAATGCAAAATATATCGAGAAAAT
CAAAGCTAAACAGAAGGAAGAAATTAATCGTATGCAACGTGAGAAAGAAGTGAAAAGGAA
AATTTTTAAAGCTTTATCAAAAATTCAATCAAAAGAAGAAAAAGGTGAGAAGACAACAGG
TGGTAAAAAGAAGCATTTTAAAAAGAAAAACTAA
>g7345.t2 Gene=g7345 Length=325
MSFYGPITPQGTGFFAVQTISNNVKELKRIGFRIAATGSIKEVDKSTTILKKLKLVGTPI
KIFQKSAFITGMFNSELEVSKFAGAKIKTVSGIRGQIKKSISSIRADNSGKHLSVEPGTY
RATFEDKIKISDIVFCRTWFKVDVPQFYAPITNMLLPQEKKSQWEGMKTLGQLKRERNIK
AEVDEDHLYKPIERPPPSFKPLVIPASLQKALPYKDKPKKGPLNPKQKFEETRVAVVHSP
HEQKVAKMMNMLKTNYIAKKNKQKERSNAKYIEKIKAKQKEEINRMQREKEVKRKIFKAL
SKIQSKEEKGEKTTGGKKKHFKKKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g7345.t2 | Coils | Coil | Coil | 261 | 296 | - |
| 5 | g7345.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 302 | 325 | - |
| 2 | g7345.t2 | PANTHER | PTHR12858 | RIBOSOME BIOGENESIS PROTEIN | 2 | 309 | 6.1E-106 |
| 3 | g7345.t2 | PANTHER | PTHR12858:SF2 | RIBOSOME BIOGENESIS PROTEIN BMS1 HOMOLOG | 2 | 309 | 6.1E-106 |
| 1 | g7345.t2 | Pfam | PF04950 | 40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal | 1 | 143 | 4.6E-41 |
| 4 | g7345.t2 | SMART | SM01362 | DUF663_2 | 1 | 142 | 1.6E-9 |
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:0042254 | ribosome biogenesis | BP |
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.
