General information for g2752.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g2752 is located on chr_3: 19985092..19985953 (- 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 | g2752 | g2752.t6 | TTS | g2752.t6 | 19984449 | 19984449 |
| chr_3 | g2752 | g2752.t6 | isoform | g2752.t6 | 19985092 | 19985953 |
| chr_3 | g2752 | g2752.t6 | exon | g2752.t6.exon1 | 19985092 | 19985953 |
| chr_3 | g2752 | g2752.t6 | cds | g2752.t6.CDS1 | 19985093 | 19985953 |
| chr_3 | g2752 | g2752.t6 | TSS | g2752.t6 | 19986036 | 19986036 |
Sequences
>g2752.t6 Gene=g2752 Length=862
ATGTCATCGGATGAAGAAACAGAAGTGATAAGTTCATCACATAAAAAACTTTTGTCAGAA
ATCAATGACATCGTAAAATTTCAACATATTAAAAAGCCCAAAAGATCAGAACCGGCAATC
AAAAATGACGAATTTCATTTGGTGAAAACCAAAAATCTTCTTGACAATGAGAAAGCTGAA
GAAGGAGCGAAAAAGCGTGATAAAAAAAGTGTATCAATACAATCGGTTGCAAATATTGTA
CGAAAAACACCAACACAAAAGAAAATCAGCAATCAATTTCAAGACACTTTTAAACAATCG
AAAGTCCTCAATAAACCATTGGAAAAAGTATATGCCGAGAGAATTCAAAGATCTGTAGGC
TATGAAAATGTAAAAACAAGTTTATCTAGATGGGATGCAATAGTAACAAAAAATAAAAAT
GCTGATCAATTACGATTCCCAATAATACAAGAAAAGGCTCCTGTCGAGCATAAGAAAGCT
TTAGATTTTTCACAATTTAGATATAAAACTCAAATGATGAAAGAAATGGAAGAGATTCAC
AATCAATGTTTTCCAAAATTATCCGAAAATGAATCTAATGAACCTTCATCAGAACTCTTA
ACACTTGAAGAAATGAAAGAAAGGAGAAAAGAATTAGCAAGACTTAAATTAAGAGAATCA
CATCAAATAGCTAAAAAACGTTTGCAAGGAAAGATTAAAAGTAAAAAATATCATAGATTG
AAGAAAAAAGAGGAGATGAAAAAGAAACTCAAAGAGTTTGAAGAACTCAAAATATCAAAT
CCTGAAGCTGCCCTGAAAGAGCTTGAAAAAATTGAAAAAGAAAGAGTGAAAGAGCGAGCA
AGTCTTAGACATAAAAATACTG
>g2752.t6 Gene=g2752 Length=287
MSSDEETEVISSSHKKLLSEINDIVKFQHIKKPKRSEPAIKNDEFHLVKTKNLLDNEKAE
EGAKKRDKKSVSIQSVANIVRKTPTQKKISNQFQDTFKQSKVLNKPLEKVYAERIQRSVG
YENVKTSLSRWDAIVTKNKNADQLRFPIIQEKAPVEHKKALDFSQFRYKTQMMKEMEEIH
NQCFPKLSENESNEPSSELLTLEEMKERRKELARLKLRESHQIAKKRLQGKIKSKKYHRL
KKKEEMKKKLKEFEELKISNPEAALKELEKIEKERVKERASLRHKNT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g2752.t6 | Coils | Coil | Coil | 202 | 222 | - |
| 2 | g2752.t6 | PANTHER | PTHR14150 | U3 SMALL NUCLEOLAR RNA-ASSOCIATED PROTEIN 14 | 2 | 287 | 3.1E-47 |
| 3 | g2752.t6 | PANTHER | PTHR14150:SF12 | U3 SMALL NUCLEOLAR RNA-ASSOCIATED PROTEIN 14 HOMOLOG A-RELATED | 2 | 287 | 3.1E-47 |
| 1 | g2752.t6 | Pfam | PF04615 | Utp14 protein | 5 | 287 | 2.6E-47 |
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:0032040 | small-subunit processome | CC |
| GO:0006364 | rRNA processing | 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.
