General information for g9940.t19
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Transitional endoplasmic reticulum ATPase TER94.
Parent gene
- The parent gene g9940 is located on chr_1: 6119674..6120493 (+ 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 | g9940 | g9940.t19 | isoform | g9940.t19 | 6118893 | 6119444 |
| chr_1 | g9940 | g9940.t19 | exon | g9940.t19.exon1 | 6118893 | 6119444 |
| chr_1 | g9940 | g9940.t19 | cds | g9940.t19.CDS1 | 6118956 | 6119444 |
| chr_1 | g9940 | g9940.t19 | TSS | g9940.t19 | NA | NA |
| chr_1 | g9940 | g9940.t19 | TTS | g9940.t19 | NA | NA |
Sequences
>g9940.t19 Gene=g9940 Length=552
CCTAAGCGTGAAAAAACTCATGGTGAAGTTGAACGCAGAATTGTCTCTCAATTATTGACT
CTCATGGACGGTATGAAGAAAAGCTCTCACGTTATCGTTATTGCTGCAACAAATCGTCCA
AATAGTATCGATCCAGCTCTTCGTCGATTCGGTCGCTTTGATCGTGAAATTGATATTGGC
ATTCCAGACGCAACTGGCCGTTTAGAGGTGTTGCGTATTCACACTAAAAATATGAAATTA
GGCGAAGATGTTGATCTTGAACAAATTGCTGCTGAATCGCATGGTCATGTTGGCGCTGAT
TTGGCTTCATTGTGCTCAGAAGCTGCACTTCAACAAATTCGTGAGAAAATGGATTTGATT
GATTTGGAAGACGATCAAATTGATGCCGACGTTTTAAATTCATTGGCTGTTTCTATGGAT
AATTTCCGTTATGCTATGACCAAATCAAGTCCATCAGCTTTGCGTGAAACAGTCGTGGAA
ACTCCAACAACTACATGGGCCGATATTGGTGGTTTAGAAAATGTCAAGCGTGAATTACAA
GAATTGGTTCAA
>g9940.t19 Gene=g9940 Length=163
MDGMKKSSHVIVIAATNRPNSIDPALRRFGRFDREIDIGIPDATGRLEVLRIHTKNMKLG
EDVDLEQIAAESHGHVGADLASLCSEAALQQIREKMDLIDLEDDQIDADVLNSLAVSMDN
FRYAMTKSSPSALRETVVETPTTTWADIGGLENVKRELQELVQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g9940.t19 | CDD | cd00009 | AAA | 1 | 39 | 1.39092E-4 |
| 7 | g9940.t19 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 41 | 3.0E-12 |
| 8 | g9940.t19 | Gene3D | G3DSA:1.10.8.60 | - | 42 | 137 | 3.9E-33 |
| 3 | g9940.t19 | PANTHER | PTHR23077:SF52 | TRANSITIONAL ENDOPLASMIC RETICULUM ATPASE HOMOLOG 1 | 6 | 163 | 5.7E-86 |
| 4 | g9940.t19 | PANTHER | PTHR23077 | AAA-FAMILY ATPASE | 6 | 163 | 5.7E-86 |
| 1 | g9940.t19 | Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 1 | 39 | 2.4E-9 |
| 2 | g9940.t19 | Pfam | PF17862 | AAA+ lid domain | 62 | 103 | 1.3E-12 |
| 6 | g9940.t19 | ProSitePatterns | PS00674 | AAA-protein family signature. | 10 | 28 | - |
| 5 | g9940.t19 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 1 | 112 | 2.23E-22 |
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:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis activity | MF |
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.
