General information for g9511.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ribonucleases P/MRP protein subunit POP1.
Parent gene
- The parent gene g9511 is located on chr_1: 3829549..3832249 (- 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 | g9511 | g9511.t1 | isoform | g9511.t1 | 3829549 | 3831921 |
| chr_1 | g9511 | g9511.t1 | exon | g9511.t1.exon1 | 3829549 | 3831921 |
| chr_1 | g9511 | g9511.t1 | cds | g9511.t1.CDS1 | 3829549 | 3831921 |
| chr_1 | g9511 | g9511.t1 | TSS | g9511.t1 | NA | NA |
| chr_1 | g9511 | g9511.t1 | TTS | g9511.t1 | NA | NA |
Sequences
>g9511.t1 Gene=g9511 Length=2373
ATGGATCAAGATAGTGAAGTTGTAAAAAAGCGTGAAAATATAAATATTGTGAATCACATT
GCCGGTCGTTTGAAAGAATTAAAGAGATTGTACAATGATGTGGTTACTACAAAATCTGAT
ATGCTGGTTCATCAAATGCTACCTAATCATTTGAGAAGACGTGCAATGAGTCATAATCCG
AAAAGACTTCCACGAAAATACCGGCAAGCACATATTAATCAAATGACAAAATCTGGACTT
GAAGGTGCAAAAAAGAAGAGACCATCTAGAAAATATCGTCGTAGACCATCAAATCTTATG
AAAGAATATAATAGACGAAAGCAGAAAAATGTATGGCTAGAAACTCATGTTTGGCATGCA
AAACGTTTTAGAATGAAGAATATGTGGGGATATCGAGTGCCTTTTACACCGACAGATAAA
CGATATAGAGCATCATATAAAGGTGCAAATCATCATTGTTTAGTTCAAGACATCAGTTAT
TATTCATGTATTGAAATATCTGGAGCTTTTGAAGATTTACAAGCTGGATTTCGTCGAATA
ACTTCGGTTGAATGTGGCTTAACTTTAAATGCAAAATGTTTATTAAATGGTACTCGCGAA
GGTAATGTAATGATTTTTAAAACGGATTCATATCCACTTCATGCTATAGCTCGTATTTCA
TTCTTATGGAGACCATCAACTGATTTATCACATCGAACTATTTGGATATTTGTTCATCCT
GGTGTCTATAAAGAAACTTTAAAAGAGTTTCTTGAGCTGTTTGATGCAAAAGAAAATGGT
TCAAATTCTAAATTAATTCGCAATCCAAAATATACCAACACAACTTCATCAATTGAAATA
ATTGAATTGAAAGATACTTTAAATCGAATTCAATTAACTGGACCCTATTCGAGTGCTGTC
TTATTTAAAACTCTCAAATTATCAACAAACTTTAAAAATAATTGGACTGAAATGCATTAT
GATGAAAATTCAATTTATAAAAAAGCTCATATAGAACAAGAGATTGTATGGAAAAAATTA
CAACAAACCACATCACATTTAGAATATCAACTATATGGAGTACTAGGTTTAACAGTTCAA
GATCCACGAATTAATCGTCCATTAAAAACGACTAAAGCTGTGAATGAATCACAATCCTTT
CAAAAAGATAACTATCTTTTTGAAGATGTGCCTCAAATAACTTCAATATCTGCAATTTGG
AATAAAGAAATTAGAGATGAACTTATCAAAACTAAAATGTCAAACAGTGAACTATGTAAA
CTTCGAAATAAGAATCAATTAGTGCCAGGAATCGCTTCATTATGTGAAAAAGATCTTCAG
CCTATTCCTATACTTTTAATACAACGACCATCAGTTGCAAGTAATAATATTCGTAAGAAT
GCATTTGGTAGCGGTTGGGATTTAATAATTCCTGCATCATATGGACTTCATTTCTGGTTA
ACACTTGTTAAATTTGGTGCTAAACCAATAGGATTGAGAGAACGATATATGATAATGAAT
GAAGCAGGTTTAAATGCATTTGATCCTGATTCATTACTTGGAAAGAAAGAGTATGAGCAA
ATTAAACAAGAAAAAACTGATCAATATTTCAAACTTCCACCTAATAAACGCACAAATTAT
ACTAAAATGAAAATTGCTTCGCCATTTGCATTACCATTCAAACAATTGATTAATGAATGG
GGATCAGAAAATAATGAATTTTATTTATTAAGGAATATTTCTCTTTTAAATGAACTTGAT
AATGCTGTGAGGAAAAGAATCAATTATAATTTTGATAAGATTGATACTAATGCTTTAATT
CCAATTTATTTAATTAATGAGGGAAGTCGTAACGATAGTTATTTCAATTTAATTTGTCTG
CCAAAAAAGTGTGACATTAAAAAGGCATTAAATCAAAAATATTTTCGTGTCAATGAGCCT
GTATTTATTGAAACAACAGGAGAAGATAAAAATGCTGTAGAAAGAAAGAATATCAGACTT
AACCACAAGAAAGCACTAAAACGTCTAAGAAATCGTCGAGTGAGACTAAAGAGAAAACTT
CAAGCGACATCAGAGTATTTTGTAAAAATACAGAAATCAAATACTGAAAAGATGATCGAA
GAGCAATTTAAGAAAATGTGTGAATTATGGCTGCCATCAAATCAACCGACAATCAGAAAT
CAATGTTCTCGTGAAGTGATTGGATATATTACAAAATCACGTTTCTGTTTCTCAGAAGGA
AAAGTTTGTGCGATTGGATATGTAACTCGAAACGGATTTAAAGAATTATTACAAGTTTTT
CAAAAATTCAAAGGACTTAAATCATTTGTCATTACTCGCAATACAAATAGCCAGAATTAT
TATCAATCAAATTTTATAATCAATCCGCAATAA
>g9511.t1 Gene=g9511 Length=790
MDQDSEVVKKRENINIVNHIAGRLKELKRLYNDVVTTKSDMLVHQMLPNHLRRRAMSHNP
KRLPRKYRQAHINQMTKSGLEGAKKKRPSRKYRRRPSNLMKEYNRRKQKNVWLETHVWHA
KRFRMKNMWGYRVPFTPTDKRYRASYKGANHHCLVQDISYYSCIEISGAFEDLQAGFRRI
TSVECGLTLNAKCLLNGTREGNVMIFKTDSYPLHAIARISFLWRPSTDLSHRTIWIFVHP
GVYKETLKEFLELFDAKENGSNSKLIRNPKYTNTTSSIEIIELKDTLNRIQLTGPYSSAV
LFKTLKLSTNFKNNWTEMHYDENSIYKKAHIEQEIVWKKLQQTTSHLEYQLYGVLGLTVQ
DPRINRPLKTTKAVNESQSFQKDNYLFEDVPQITSISAIWNKEIRDELIKTKMSNSELCK
LRNKNQLVPGIASLCEKDLQPIPILLIQRPSVASNNIRKNAFGSGWDLIIPASYGLHFWL
TLVKFGAKPIGLRERYMIMNEAGLNAFDPDSLLGKKEYEQIKQEKTDQYFKLPPNKRTNY
TKMKIASPFALPFKQLINEWGSENNEFYLLRNISLLNELDNAVRKRINYNFDKIDTNALI
PIYLINEGSRNDSYFNLICLPKKCDIKKALNQKYFRVNEPVFIETTGEDKNAVERKNIRL
NHKKALKRLRNRRVRLKRKLQATSEYFVKIQKSNTEKMIEEQFKKMCELWLPSNQPTIRN
QCSREVIGYITKSRFCFSEGKVCAIGYVTRNGFKELLQVFQKFKGLKSFVITRNTNSQNY
YQSNFIINPQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9511.t1 | Coils | Coil | Coil | 659 | 686 | - |
| 4 | g9511.t1 | PANTHER | PTHR22731 | RIBONUCLEASES P/MRP PROTEIN SUBUNIT POP1 | 11 | 780 | 1.2E-135 |
| 5 | g9511.t1 | PANTHER | PTHR22731:SF3 | RIBONUCLEASES P/MRP PROTEIN SUBUNIT POP1 | 11 | 780 | 1.2E-135 |
| 3 | g9511.t1 | Pfam | PF06978 | Ribonucleases P/MRP protein subunit POP1 | 20 | 91 | 3.9E-11 |
| 2 | g9511.t1 | Pfam | PF06978 | Ribonucleases P/MRP protein subunit POP1 | 94 | 168 | 4.1E-20 |
| 1 | g9511.t1 | Pfam | PF08170 | POPLD (NUC188) domain | 465 | 551 | 4.6E-19 |
| 6 | g9511.t1 | SUPERFAMILY | SSF103025 | Folate-binding domain | 438 | 510 | 4.12E-5 |
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:0000172 | ribonuclease MRP complex | CC |
| GO:0005655 | nucleolar ribonuclease P complex | CC |
| GO:0001682 | tRNA 5’-leader removal | BP |
KEGG
Orthology
- This transcript has been annotated with K01164 (ribonuclease P/MRP protein subunit POP1)
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.
