General information for g6773.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nascent polypeptide-associated complex subunit alpha.
Parent gene
- The parent gene g6773 is located on chr_2: 18558119..18564193 (- 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 | g6773 | g6773.t12 | TTS | g6773.t12 | 18557899 | 18557899 |
| chr_2 | g6773 | g6773.t12 | isoform | g6773.t12 | 18558119 | 18559262 |
| chr_2 | g6773 | g6773.t12 | exon | g6773.t12.exon1 | 18558119 | 18558711 |
| chr_2 | g6773 | g6773.t12 | cds | g6773.t12.CDS1 | 18558119 | 18558577 |
| chr_2 | g6773 | g6773.t12 | exon | g6773.t12.exon2 | 18559200 | 18559262 |
| chr_2 | g6773 | g6773.t12 | TSS | g6773.t12 | 18559262 | 18559262 |
Sequences
>g6773.t12 Gene=g6773 Length=656
CTTTTTCGCTCTCACATTTGCAAAGAAAACAAAGTAATTTTTTAAAAAACGTAAGAAAAA
AATCAGCTACAGAAGCAGAACCAAAATTAACAGATGACGTCAGCGATACTGAGTCAGAAG
AATCAATTCCAGAATTGGAAGATGCCACCAATGAAGCTCAATTAGGTACTGGTGGTTCAA
CTGGACTTCAATCAGATATGGTTTCGAAAGCAAAACAATCTCGAGGAGAGAAAAAAGCAC
GTAAGATTATGTCAAAGTTGGGATTGAAACCAGTCACTGGAGTTACAAGAGTTACAATTC
GCAAATCAAAGAACATTCTCTTTGTAATCAATAATCCGGATGTTTACAAGAATCCGCATA
GTGATACATACATCATTTTTGGTGAGGCAAAAATAGAAGACTTGTCTCAACAAACGCAAG
TTGCAGCAGCTGAAAAATTCAAGGCACCCGAAACAGTTCCTACTGATACCACTTCAGCCA
ATGTTGTTGCTCCGATTGCTGAAGAAGACGAGGAAGAAGTTGATGATACTGGGGTCGATG
AAAAGGATATTGACCTTGTTGTGTCACAAGCAAATGTCCCTCGTGCTAAAGCTATCCGCG
CCCTTAAGAACAACAATAATGATATAGTCAACGCAATCATGGAACTAACGATGTAA
>g6773.t12 Gene=g6773 Length=152
MVSKAKQSRGEKKARKIMSKLGLKPVTGVTRVTIRKSKNILFVINNPDVYKNPHSDTYII
FGEAKIEDLSQQTQVAAAEKFKAPETVPTDTTSANVVAPIAEEDEEEVDDTGVDEKDIDL
VVSQANVPRAKAIRALKNNNNDIVNAIMELTM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g6773.t12 | CDD | cd14358 | UBA_NAC_euk | 115 | 151 | 0.000 |
| 7 | g6773.t12 | Gene3D | G3DSA:2.20.70.30 | - | 21 | 74 | 0.000 |
| 6 | g6773.t12 | Gene3D | G3DSA:1.10.8.10 | DNA helicase RuvA subunit | 112 | 151 | 0.000 |
| 3 | g6773.t12 | PANTHER | PTHR21713 | NASCENT POLYPEPTIDE ASSOCIATED COMPLEX ALPHA SUBUNIT-RELATED | 2 | 152 | 0.000 |
| 4 | g6773.t12 | PANTHER | PTHR21713:SF1 | NAC-ALPHA DOMAIN-CONTAINING PROTEIN 1 | 2 | 152 | 0.000 |
| 9 | g6773.t12 | PIRSF | PIRSF015901 | NAC_alpha | 1 | 152 | 0.000 |
| 1 | g6773.t12 | Pfam | PF01849 | NAC domain | 11 | 66 | 0.000 |
| 2 | g6773.t12 | Pfam | PF19026 | HYPK UBA domain | 112 | 151 | 0.000 |
| 8 | g6773.t12 | ProSiteProfiles | PS51151 | NAC A/B domain profile. | 8 | 73 | 18.628 |
| 5 | g6773.t12 | SMART | SM01407 | NAC_2 | 11 | 67 | 0.000 |
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:0005854 | nascent polypeptide-associated complex | CC |
KEGG
Orthology
- This transcript has been annotated with K03626 (nascent polypeptide-associated complex subunit alpha)
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. There were no conditions that were differentially expressed