General information for g3059.t18
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Calcium-transporting ATPase sarcoplasmic/endoplasmic reticulum type.
Parent gene
- The parent gene g3059 is located on chr_3: 22373974..22380788 (- 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_3 | g3059 | g3059.t18 | isoform | g3059.t18 | 22373308 | 22380788 |
| chr_3 | g3059 | g3059.t18 | exon | g3059.t18.exon1 | 22373308 | 22373836 |
| chr_3 | g3059 | g3059.t18 | cds | g3059.t18.CDS1 | 22373309 | 22373785 |
| chr_3 | g3059 | g3059.t18 | exon | g3059.t18.exon2 | 22373931 | 22374029 |
| chr_3 | g3059 | g3059.t18 | exon | g3059.t18.exon3 | 22375067 | 22375171 |
| chr_3 | g3059 | g3059.t18 | exon | g3059.t18.exon4 | 22377283 | 22377454 |
| chr_3 | g3059 | g3059.t18 | exon | g3059.t18.exon5 | 22380704 | 22380788 |
| chr_3 | g3059 | g3059.t18 | TSS | g3059.t18 | 22380898 | 22380898 |
| chr_3 | g3059 | g3059.t18 | TTS | g3059.t18 | NA | NA |
Sequences
>g3059.t18 Gene=g3059 Length=990
TTTTTTCTCCTCGTGAAGTGTGTAGTTTATTTAATGTCAATCGATAATAAGTGAGAAATA
AAAAATTATTTAAAGTCAGATAATTAATAATTGAATCTTAGATTATACGACACAATAAAT
TAATAATCAAGTCTCAATAATGGAGGACGCCCATTGCAAGACATCCGACGAGGTGTTAAA
GTACTTCGGCACAAATGAAGAATTAGGATTAACGCCAGATCAAGTCAAACAATATCAGGC
TAAATACGGACCTAATGAACTTCCAGCCGAGGAAGGCAAAACAATATGGCAATTAGTACT
TGAACAGTTTGACGATCTTTTAGTTAAAATTTTGTTATTGGCTGCTATTATTTCATTTGT
AACTCTTTTTGAAGAACATGAGGGTATTGAAGCATTCGTAGAACCATTTGTAATTTTACT
TATTTTAATTGCTAATGCTGTTGTTGGTGTTTGGCAAGTGAGAACGAAATGCAGAGTCAG
CAATTGAAGCCCTCAAAGAATATGAACCCGAAATGGGTAAAGTCGTTCGTCAGGATAAGT
CCGGAGTACAAAAACTCCGTGCCAAAGAGATTGTACCAGGTGATATCGTTGAAGTGTCAG
TCGGTGACAAAATTCCAGCTGATATTCGTTTAATTAAGATCTACTCAACGACAATTCGTA
TTGATCAATCTATCTTGACTGGTGAATCAGTTTCAGTCATTAAACACACTGATGCTGTCC
CAGATCCACGCGCTGTCAACCAAGATAAGAAAAATATTTTGTTCTCAGGAACTAATGTTG
CCGCTGGTAAGGCACGTGGTATCGTTATTGGAACTGGCCTTAACACTGCTATCGGTAAAA
TTCGTACTGAAATGTCAGAAACTGAAGAAATTAAGACACCATTGCAACAAAAATTGGATG
AATTCGGTGAACAATTGTCAAAGGTCATTTCAATCATTTGCGTTGCTGTCTGGGCTATCA
ACATTGGTCACTTTAACGATCCAGCTCATG
>g3059.t18 Gene=g3059 Length=159
MGKVVRQDKSGVQKLRAKEIVPGDIVEVSVGDKIPADIRLIKIYSTTIRIDQSILTGESV
SVIKHTDAVPDPRAVNQDKKNILFSGTNVAAGKARGIVIGTGLNTAIGKIRTEMSETEEI
KTPLQQKLDEFGEQLSKVISIICVAVWAINIGHFNDPAH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3059.t18 | Gene3D | G3DSA:2.70.150.10 | - | 1 | 94 | 0e+00 |
| 7 | g3059.t18 | Gene3D | G3DSA:1.20.1110.10 | - | 95 | 159 | 0e+00 |
| 2 | g3059.t18 | PANTHER | PTHR42861:SF18 | SARCOPLASMIC/ENDOPLASMIC RETICULUM CALCIUM ATPASE 2 | 1 | 159 | 0e+00 |
| 3 | g3059.t18 | PANTHER | PTHR42861 | CALCIUM-TRANSPORTING ATPASE | 1 | 159 | 0e+00 |
| 1 | g3059.t18 | Pfam | PF00122 | E1-E2 ATPase | 8 | 157 | 0e+00 |
| 5 | g3059.t18 | SUPERFAMILY | SSF81653 | Calcium ATPase, transduction domain A | 7 | 111 | 0e+00 |
| 4 | g3059.t18 | SUPERFAMILY | SSF81665 | Calcium ATPase, transmembrane domain M | 115 | 155 | 9e-07 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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. There were no conditions that were differentially expressed