Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative DNA-directed RNA polymerase III subunit RPC5.

Parent gene

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.t3 TTS g10747.t3 11683292 11683292
chr_1 g10747 g10747.t3 isoform g10747.t3 11683314 11684517
chr_1 g10747 g10747.t3 exon g10747.t3.exon1 11683314 11684517
chr_1 g10747 g10747.t3 cds g10747.t3.CDS1 11683314 11684483
chr_1 g10747 g10747.t3 TSS g10747.t3 11684921 11684921

Sequences

>g10747.t3 Gene=g10747 Length=1204
TGCTTCAAGAAATTATGATGCATTTAAAGGAGAAATGCTTGCAAAAACAGCTGATGGAAG
TAAATCAACTAATGATAAAAACGATCTCCCAAGTTTCTCATCCGGCCGTATGGATAAATC
TACTTTTATAAGTTCATTACCATTTGATAACCAAAAGTTTGCTGTTGGTGTAATGCAAGA
CAAACAATTGCATTTAGTTCCAGTAAAAAATTTCTTTCAAATGAGACAAACATTTTCTCA
TTTTGATAAAGGTGATAAACGCATAAAATCGGAGAAAAGTGGAGATGATGATGACGATGA
TGATCTGAAACAAGTAACAGTTAAATTTGCAAAACCAGCTGGAGATTCTGAAAGAATTAA
AAAAGCAAGAGAGAGGTCATATCAGTTTATTTCTTCAATCGGAAAAGATGAAGCTTGGTG
TGAAACTTTAATATATTCAAAAATTTCACCAGAATCAGAATTGGAACGCCAAAAAATTCT
TTATACTGGTGGACAACAACAGCATTTGAGTACAATACCAGTACAAGATTACTTTGAAAC
ACTTATGACACCAGATAAAGGGTCAATTTCTCTTACATCACATGAACCGTCAAAATCAGA
TGATACTTCAGAAAAGCATATTGATGTGTTGAAAGGGATTGTCAGTAAGAGACTCATTAA
AAGATTACCATTGATTGATCAACTAAAAGTGGTATTGAAAGACTCAAAAGTTTTAACATT
TAACAATATAATGGATTTAATTGGAAGTCAAATCATCACAACTGAAAAGGTTTTAAGAAC
TCTTGCTCTTTGTGGTATCATGATTCGCGGTAACTGGACACTTCAATCAGAACATTTGTA
TCCTGGAAATTATATATCGGTCACTAATGGAATTTCTTCAGAACTTATGTGTAGAGGTCG
AGATTATATATTATTTAAACTCATGAGAAATGAATTAATGACACTCAATCGTCAAAAATT
ATCTGTTATCACTCAATTACCAGCTGAAGAAACAAAAGAAATTTTAGAGAGTGTTGCATC
ATTGAAATCAAACAAAACTTGGGATTTACTCAAACCACCTGATTACGAATTTGAAAAACG
GCATCCAGAAATTATACAAAGGCAAGAAGCATTTTGGAGAGCGCAAGAGGAAAAATTTGC
TGAAATGGAAGCTGAAAAACCTGAAAAACGAAAACGAACTAAATCTGTAAGAGAAACAAA
ATAA

>g10747.t3 Gene=g10747 Length=389
MLAKTADGSKSTNDKNDLPSFSSGRMDKSTFISSLPFDNQKFAVGVMQDKQLHLVPVKNF
FQMRQTFSHFDKGDKRIKSEKSGDDDDDDDLKQVTVKFAKPAGDSERIKKARERSYQFIS
SIGKDEAWCETLIYSKISPESELERQKILYTGGQQQHLSTIPVQDYFETLMTPDKGSISL
TSHEPSKSDDTSEKHIDVLKGIVSKRLIKRLPLIDQLKVVLKDSKVLTFNNIMDLIGSQI
ITTEKVLRTLALCGIMIRGNWTLQSEHLYPGNYISVTNGISSELMCRGRDYILFKLMRNE
LMTLNRQKLSVITQLPAEETKEILESVASLKSNKTWDLLKPPDYEFEKRHPEIIQRQEAF
WRAQEEKFAEMEAEKPEKRKRTKSVRETK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
3 g10747.t3 MobiDBLite mobidb-lite consensus disorder prediction 1 21 -
4 g10747.t3 MobiDBLite mobidb-lite consensus disorder prediction 369 389 -
2 g10747.t3 PANTHER PTHR12069 DNA-DIRECTED RNA POLYMERASES III 80 KDA POLYPEPTIDE RNA POLYMERASE III SUBUNIT 5 14 361 4.9E-51
1 g10747.t3 Pfam PF04801 Sin-like protein conserved region 6 369 4.7E-89

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 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.

Raw TPM values