General information for g10747.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as DNA-directed RNA polymerase III subunit RPC5.
Parent gene
- The parent gene g10747 is located on chr_1: 11684816..11695188 (- 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 | g10747 | g10747.t1 | TTS | g10747.t1 | 11683292 | 11683292 |
| chr_1 | g10747 | g10747.t1 | isoform | g10747.t1 | 11683314 | 11684816 |
| chr_1 | g10747 | g10747.t1 | exon | g10747.t1.exon1 | 11683314 | 11684543 |
| chr_1 | g10747 | g10747.t1 | cds | g10747.t1.CDS1 | 11683314 | 11684543 |
| chr_1 | g10747 | g10747.t1 | exon | g10747.t1.exon2 | 11684594 | 11684719 |
| chr_1 | g10747 | g10747.t1 | cds | g10747.t1.CDS2 | 11684594 | 11684719 |
| chr_1 | g10747 | g10747.t1 | exon | g10747.t1.exon3 | 11684784 | 11684816 |
| chr_1 | g10747 | g10747.t1 | cds | g10747.t1.CDS3 | 11684784 | 11684816 |
| chr_1 | g10747 | g10747.t1 | TSS | g10747.t1 | 11684921 | 11684921 |
Sequences
>g10747.t1 Gene=g10747 Length=1389
ATGATTGATAATGATGATCCAATTATTGATGAGATTCCAGTTTATCTTTCAAGTAATTTG
GCGAAAAATCTATACATTTTACAGTTTCCGGTGAATAACACATTTGATATCGATCAATCA
AAAATCTCGAATTGTTGTCTCAAACCTGAAAGTAAACAAATCAAAATCGATTTTACACTT
GATACTGCTTCAAGAAATTATGATGCATTTAAAGGAGAAATGCTTGCAAAAACAGCTGAT
GGAAGTAAATCAACTAATGATAAAAACGATCTCCCAAGTTTCTCATCCGGCCGTATGGAT
AAATCTACTTTTATAAGTTCATTACCATTTGATAACCAAAAGTTTGCTGTTGGTGTAATG
CAAGACAAACAATTGCATTTAGTTCCAGTAAAAAATTTCTTTCAAATGAGACAAACATTT
TCTCATTTTGATAAAGGTGATAAACGCATAAAATCGGAGAAAAGTGGAGATGATGATGAC
GATGATGATCTGAAACAAGTAACAGTTAAATTTGCAAAACCAGCTGGAGATTCTGAAAGA
ATTAAAAAAGCAAGAGAGAGGTCATATCAGTTTATTTCTTCAATCGGAAAAGATGAAGCT
TGGTGTGAAACTTTAATATATTCAAAAATTTCACCAGAATCAGAATTGGAACGCCAAAAA
ATTCTTTATACTGGTGGACAACAACAGCATTTGAGTACAATACCAGTACAAGATTACTTT
GAAACACTTATGACACCAGATAAAGGGTCAATTTCTCTTACATCACATGAACCGTCAAAA
TCAGATGATACTTCAGAAAAGCATATTGATGTGTTGAAAGGGATTGTCAGTAAGAGACTC
ATTAAAAGATTACCATTGATTGATCAACTAAAAGTGGTATTGAAAGACTCAAAAGTTTTA
ACATTTAACAATATAATGGATTTAATTGGAAGTCAAATCATCACAACTGAAAAGGTTTTA
AGAACTCTTGCTCTTTGTGGTATCATGATTCGCGGTAACTGGACACTTCAATCAGAACAT
TTGTATCCTGGAAATTATATATCGGTCACTAATGGAATTTCTTCAGAACTTATGTGTAGA
GGTCGAGATTATATATTATTTAAACTCATGAGAAATGAATTAATGACACTCAATCGTCAA
AAATTATCTGTTATCACTCAATTACCAGCTGAAGAAACAAAAGAAATTTTAGAGAGTGTT
GCATCATTGAAATCAAACAAAACTTGGGATTTACTCAAACCACCTGATTACGAATTTGAA
AAACGGCATCCAGAAATTATACAAAGGCAAGAAGCATTTTGGAGAGCGCAAGAGGAAAAA
TTTGCTGAAATGGAAGCTGAAAAACCTGAAAAACGAAAACGAACTAAATCTGTAAGAGAA
ACAAAATAA
>g10747.t1 Gene=g10747 Length=462
MIDNDDPIIDEIPVYLSSNLAKNLYILQFPVNNTFDIDQSKISNCCLKPESKQIKIDFTL
DTASRNYDAFKGEMLAKTADGSKSTNDKNDLPSFSSGRMDKSTFISSLPFDNQKFAVGVM
QDKQLHLVPVKNFFQMRQTFSHFDKGDKRIKSEKSGDDDDDDDLKQVTVKFAKPAGDSER
IKKARERSYQFISSIGKDEAWCETLIYSKISPESELERQKILYTGGQQQHLSTIPVQDYF
ETLMTPDKGSISLTSHEPSKSDDTSEKHIDVLKGIVSKRLIKRLPLIDQLKVVLKDSKVL
TFNNIMDLIGSQIITTEKVLRTLALCGIMIRGNWTLQSEHLYPGNYISVTNGISSELMCR
GRDYILFKLMRNELMTLNRQKLSVITQLPAEETKEILESVASLKSNKTWDLLKPPDYEFE
KRHPEIIQRQEAFWRAQEEKFAEMEAEKPEKRKRTKSVRETK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g10747.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 442 | 462 | - |
| 2 | g10747.t1 | PANTHER | PTHR12069 | DNA-DIRECTED RNA POLYMERASES III 80 KDA POLYPEPTIDE RNA POLYMERASE III SUBUNIT 5 | 4 | 434 | 2.4E-69 |
| 1 | g10747.t1 | Pfam | PF04801 | Sin-like protein conserved region | 5 | 442 | 1.2E-116 |
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:0005634 | nucleus | CC |
| GO:0006351 | transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K14721 (DNA-directed RNA polymerase III subunit RPC5)
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.
