General information for g5112.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sodium/potassium-transporting ATPase subunit beta-1.
Parent gene
- The parent gene g5112 is located on chr_2: 7054375..7062886 (+ 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 | g5112 | g5112.t2 | TSS | g5112.t2 | 7054015 | 7054015 |
| chr_2 | g5112 | g5112.t2 | isoform | g5112.t2 | 7054375 | 7062497 |
| chr_2 | g5112 | g5112.t2 | exon | g5112.t2.exon1 | 7054375 | 7054570 |
| chr_2 | g5112 | g5112.t2 | cds | g5112.t2.CDS1 | 7054375 | 7054570 |
| chr_2 | g5112 | g5112.t2 | exon | g5112.t2.exon2 | 7061748 | 7062005 |
| chr_2 | g5112 | g5112.t2 | cds | g5112.t2.CDS2 | 7061748 | 7062005 |
| chr_2 | g5112 | g5112.t2 | exon | g5112.t2.exon3 | 7062066 | 7062497 |
| chr_2 | g5112 | g5112.t2 | cds | g5112.t2.CDS3 | 7062066 | 7062496 |
| chr_2 | g5112 | g5112.t2 | TTS | g5112.t2 | 7063183 | 7063183 |
Sequences
>g5112.t2 Gene=g5112 Length=886
ATGCAATCGAATTATGATGGCGCGGGTGAAGCAGTTCCCTTGAAAGTAAGAGGGAAAAAG
CCCAAAGCAGAAATAGTGACCACAACTTATGAATTTAATGATCCATATTTGAGAAAGCCG
AAATCTAAATCACTTGGTAAAATGGTTTATGATAAAGAGCATGGGAAAATTCTAGGAAGA
ACACCAAGAAATTGGGGTGAATTGCTATTTTTTTATACAATCTTTTACATTGTTCTTGCT
GCACTTTTTGCCATTTGTATGAAAGGATTGATGTTAACAATTGATAAACATCAACCAAAA
TGGAAACTTGATGAGTCAATCATAGGAACAAATCCTGGATTAGGTTTTCGTCCAATTTCT
CATGATGTTGACCAAGGTTCTCTTATTTGGTATGATTCAACAAATGAAACACAAGTCGAA
TATTGGGTGGAAAGAATTGATGAATTTTTGTCTGAATATAATAAAACAGATAACCAAAAA
CCATGTAACTTTGATTCAAGAAAGACAGCAAAACAAGTTTGTGCACTTAATTTAAAGGAA
TTTGGACATTGTTCAAGGGAAAATTCTTATGGCTATGGAGCTTCTAAACCATGTATTTTT
CTAAAATTAAATCGTATTTATGGCTGGGTTCCTGAATATTATAATGATCCAAATGATTTG
CCAAAAGATATGCCTGAATCATTGAAAACATACATTACCAATTTACCAGAAAATCAAAGA
AATCAAGTGTGGGTTACATGCAGTGGAGAAAATGGAATGGATAGAGAAATTATTGGTGAT
GCTGTTTATTATCCAAGTCATGGATTTCCTGGATATTTTTATCCTTATACGAACAACCCT
GGCTATGTTAGCCCTTTAGTTGCAGTACAATTTAAAAGACCTGCAT
>g5112.t2 Gene=g5112 Length=295
MQSNYDGAGEAVPLKVRGKKPKAEIVTTTYEFNDPYLRKPKSKSLGKMVYDKEHGKILGR
TPRNWGELLFFYTIFYIVLAALFAICMKGLMLTIDKHQPKWKLDESIIGTNPGLGFRPIS
HDVDQGSLIWYDSTNETQVEYWVERIDEFLSEYNKTDNQKPCNFDSRKTAKQVCALNLKE
FGHCSRENSYGYGASKPCIFLKLNRIYGWVPEYYNDPNDLPKDMPESLKTYITNLPENQR
NQVWVTCSGENGMDREIIGDAVYYPSHGFPGYFYPYTNNPGYVSPLVAVQFKRPA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5112.t2 | Gene3D | G3DSA:2.60.40.1660 | Na | 37 | 295 | 9.0E-84 |
| 2 | g5112.t2 | PANTHER | PTHR11523:SF31 | SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA-1 | 37 | 294 | 1.9E-111 |
| 3 | g5112.t2 | PANTHER | PTHR11523 | SODIUM/POTASSIUM-DEPENDENT ATPASE BETA SUBUNIT | 37 | 294 | 1.9E-111 |
| 1 | g5112.t2 | Pfam | PF00287 | Sodium / potassium ATPase beta chain | 41 | 294 | 9.7E-71 |
| 7 | g5112.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 68 | - |
| 8 | g5112.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 69 | 92 | - |
| 6 | g5112.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 93 | 295 | - |
| 4 | g5112.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 65 | 87 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5112/g5112.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5112.t2.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0006813 | potassium ion transport | BP |
| GO:0005890 | sodium:potassium-exchanging ATPase complex | CC |
| GO:0006814 | sodium ion transport | BP |
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