Gene loci information

Transcript annotation

  • This transcript has been annotated as Nascent polypeptide-associated complex subunit alpha.

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_2 g6773 g6773.t18 TTS g6773.t18 18557899 18557899
chr_2 g6773 g6773.t18 isoform g6773.t18 18558119 18564193
chr_2 g6773 g6773.t18 exon g6773.t18.exon1 18558119 18558762
chr_2 g6773 g6773.t18 cds g6773.t18.CDS1 18558119 18558751
chr_2 g6773 g6773.t18 exon g6773.t18.exon2 18564163 18564193
chr_2 g6773 g6773.t18 TSS g6773.t18 NA NA

Sequences

>g6773.t18 Gene=g6773 Length=675
TCACGTTTTGCCAAATTAATTGCAGTTGAAAAATCTTTTACGATGCCAGAATTAACTGAA
ATCAAAGCTGAAAATCCTGCAGCAGCTACAGAAGCAGAACCAAAATTAACAGATGACGTC
AGCGATACTGAGTCAGAAGAATCAATTCCAGAATTGGAAGATGCCACCAATGAAGCTCAA
TTAGGTACTGGTGGTTCAACTGGACTTCAATCAGATATGGTTTCGAAAGCAAAACAATCT
CGAGGAGAGAAAAAAGCACGTAAGATTATGTCAAAGTTGGGATTGAAACCAGTCACTGGA
GTTACAAGAGTTACAATTCGCAAATCAAAGAACATTCTCTTTGTAATCAATAATCCGGAT
GTTTACAAGAATCCGCATAGTGATACATACATCATTTTTGGTGAGGCAAAAATAGAAGAC
TTGTCTCAACAAACGCAAGTTGCAGCAGCTGAAAAATTCAAGGCACCCGAAACAGTTCCT
ACTGATACCACTTCAGCCAATGTTGTTGCTCCGATTGCTGAAGAAGACGAGGAAGAAGTT
GATGATACTGGGGTCGATGAAAAGGATATTGACCTTGTTGTGTCACAAGCAAATGTCCCT
CGTGCTAAAGCTATCCGCGCCCTTAAGAACAACAATAATGATATAGTCAACGCAATCATG
GAACTAACGATGTAA

>g6773.t18 Gene=g6773 Length=210
MPELTEIKAENPAAATEAEPKLTDDVSDTESEESIPELEDATNEAQLGTGGSTGLQSDMV
SKAKQSRGEKKARKIMSKLGLKPVTGVTRVTIRKSKNILFVINNPDVYKNPHSDTYIIFG
EAKIEDLSQQTQVAAAEKFKAPETVPTDTTSANVVAPIAEEDEEEVDDTGVDEKDIDLVV
SQANVPRAKAIRALKNNNNDIVNAIMELTM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g6773.t18 CDD cd14358 UBA_NAC_euk 173 209 5.22315E-17
7 g6773.t18 Coils Coil Coil 191 210 -
6 g6773.t18 Gene3D G3DSA:2.20.70.30 - 79 132 1.2E-32
5 g6773.t18 Gene3D G3DSA:1.10.8.10 DNA helicase RuvA subunit 170 209 4.7E-14
12 g6773.t18 MobiDBLite mobidb-lite consensus disorder prediction 1 74 -
11 g6773.t18 MobiDBLite mobidb-lite consensus disorder prediction 45 62 -
3 g6773.t18 PANTHER PTHR21713 NASCENT POLYPEPTIDE ASSOCIATED COMPLEX ALPHA SUBUNIT-RELATED 30 210 5.0E-87
4 g6773.t18 PANTHER PTHR21713:SF1 NAC-ALPHA DOMAIN-CONTAINING PROTEIN 1 30 210 5.0E-87
8 g6773.t18 PIRSF PIRSF015901 NAC_alpha 27 210 2.7E-70
1 g6773.t18 Pfam PF01849 NAC domain 69 124 2.8E-23
2 g6773.t18 Pfam PF19026 HYPK UBA domain 170 209 5.8E-11
13 g6773.t18 ProSiteProfiles PS51151 NAC A/B domain profile. 66 131 18.628
10 g6773.t18 SMART SM01407 NAC_2 69 125 1.5E-28

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

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.

Raw TPM values