General information for g14088.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ER lumen protein-retaining receptor.
Parent gene
- The parent gene g14088 is located on chr_1: 34574243..34575018 (+ 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 | g14088 | g14088.t1 | TSS | g14088.t1 | 34572860 | 34572860 |
| chr_1 | g14088 | g14088.t1 | isoform | g14088.t1 | 34572934 | 34574243 |
| chr_1 | g14088 | g14088.t1 | exon | g14088.t1.exon1 | 34572934 | 34573024 |
| chr_1 | g14088 | g14088.t1 | cds | g14088.t1.CDS1 | 34572934 | 34573024 |
| chr_1 | g14088 | g14088.t1 | exon | g14088.t1.exon2 | 34573509 | 34573768 |
| chr_1 | g14088 | g14088.t1 | cds | g14088.t1.CDS2 | 34573509 | 34573768 |
| chr_1 | g14088 | g14088.t1 | exon | g14088.t1.exon3 | 34573830 | 34573976 |
| chr_1 | g14088 | g14088.t1 | cds | g14088.t1.CDS3 | 34573830 | 34573976 |
| chr_1 | g14088 | g14088.t1 | exon | g14088.t1.exon4 | 34574042 | 34574147 |
| chr_1 | g14088 | g14088.t1 | cds | g14088.t1.CDS4 | 34574042 | 34574147 |
| chr_1 | g14088 | g14088.t1 | exon | g14088.t1.exon5 | 34574209 | 34574243 |
| chr_1 | g14088 | g14088.t1 | cds | g14088.t1.CDS5 | 34574209 | 34574243 |
| chr_1 | g14088 | g14088.t1 | TTS | g14088.t1 | 34574484 | 34574484 |
Sequences
>g14088.t1 Gene=g14088 Length=639
ATGAATATATTTAGATTAGCCGGTGATTTGTCGCACTTATTAGCCATAATTATATTGCTC
CTTAAAATATGGAAAACGAGGTCTTGTGCAGGAATTTCCGGCAAATCACAAATATTATTC
GCAATAGTTTATTTTAGTCGTTATTTGGATCTTTTTACGACATTCATCAGTCTTTACAAC
ACCTTTATGAAAGTGGTGTTTATTGGTTCTTCACTTGGAACGTTGTACTTGATGTACGGC
AAATTTCGTGCTACATATGATCACAATCACGATTCATTCCGAATTGAATTCTTGCTCGTT
CCTTGTGTTCTTCTCGGATTGCTCATCAATCATGATTTTACAGTTCTTGAAGTATTATGG
ACATTCTCAATTTATTTGGAATCGGTAGCAATTTTACCTCAACTCTTCCTTGTTAGTAAG
ACAGGAGAAGCGGAAAGTATTACAAGCCATTATCTTTTTGCACTTGGATCATATCGTGCA
TTGTATATTCTTAATTGGATTTACCGATACATTGTCGAAAGTCATTATGATTTGATTGCG
ATTGTAGCTGGTATTGTTCAGACAATTTTGTATTGCGATTTCTTCTATTTGTATATAACG
AAAGTGTTGAAAGGAAAAAAACTTCAATTACCAGCCTAG
>g14088.t1 Gene=g14088 Length=212
MNIFRLAGDLSHLLAIIILLLKIWKTRSCAGISGKSQILFAIVYFSRYLDLFTTFISLYN
TFMKVVFIGSSLGTLYLMYGKFRATYDHNHDSFRIEFLLVPCVLLGLLINHDFTVLEVLW
TFSIYLESVAILPQLFLVSKTGEAESITSHYLFALGSYRALYILNWIYRYIVESHYDLIA
IVAGIVQTILYCDFFYLYITKVLKGKKLQLPA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g14088.t1 | PANTHER | PTHR10585 | ER LUMEN PROTEIN RETAINING RECEPTOR | 1 | 212 | 5.1E-114 |
| 3 | g14088.t1 | PANTHER | PTHR10585:SF83 | ER LUMEN PROTEIN-RETAINING RECEPTOR 2 | 1 | 212 | 5.1E-114 |
| 9 | g14088.t1 | PRINTS | PR00660 | ER lumen protein retaining receptor signature | 4 | 23 | 6.1E-73 |
| 6 | g14088.t1 | PRINTS | PR00660 | ER lumen protein retaining receptor signature | 31 | 51 | 6.1E-73 |
| 5 | g14088.t1 | PRINTS | PR00660 | ER lumen protein retaining receptor signature | 52 | 68 | 6.1E-73 |
| 10 | g14088.t1 | PRINTS | PR00660 | ER lumen protein retaining receptor signature | 120 | 140 | 6.1E-73 |
| 4 | g14088.t1 | PRINTS | PR00660 | ER lumen protein retaining receptor signature | 142 | 156 | 6.1E-73 |
| 8 | g14088.t1 | PRINTS | PR00660 | ER lumen protein retaining receptor signature | 156 | 174 | 6.1E-73 |
| 7 | g14088.t1 | PRINTS | PR00660 | ER lumen protein retaining receptor signature | 184 | 199 | 6.1E-73 |
| 1 | g14088.t1 | Pfam | PF00810 | ER lumen protein retaining receptor | 28 | 169 | 3.7E-57 |
| 23 | g14088.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 32 | g14088.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 24 | - |
| 20 | g14088.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 25 | 35 | - |
| 27 | g14088.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 36 | 56 | - |
| 25 | g14088.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 57 | 61 | - |
| 31 | g14088.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 62 | 80 | - |
| 19 | g14088.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 81 | 91 | - |
| 29 | g14088.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 92 | 113 | - |
| 24 | g14088.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 114 | 118 | - |
| 28 | g14088.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 119 | 139 | - |
| 21 | g14088.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 140 | 150 | - |
| 30 | g14088.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 151 | 172 | - |
| 22 | g14088.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 173 | 177 | - |
| 26 | g14088.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 178 | 199 | - |
| 18 | g14088.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 200 | 212 | - |
| 17 | g14088.t1 | ProSitePatterns | PS00951 | ER lumen protein retaining receptor signature 1. | 31 | 48 | - |
| 16 | g14088.t1 | ProSitePatterns | PS00952 | ER lumen protein retaining receptor signature 2. | 126 | 135 | - |
| 13 | g14088.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 56 | 78 | - |
| 15 | g14088.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 110 | - |
| 12 | g14088.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 115 | 137 | - |
| 11 | g14088.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 147 | 166 | - |
| 14 | g14088.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 178 | 200 | - |
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:0046923 | ER retention sequence binding | MF |
| GO:0016021 | integral component of membrane | CC |
| GO:0006621 | protein retention in ER lumen | BP |
KEGG
Orthology
- This transcript has been annotated with K10949 (ER lumen protein retaining receptor)
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.
