General information for g588.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Pyrokinin-1 receptor.
Parent gene
- The parent gene g588 is located on chr_3: 4346823..4347901 (+ 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 | g588 | g588.t1 | isoform | g588.t1 | 4346823 | 4347901 |
| chr_3 | g588 | g588.t1 | exon | g588.t1.exon1 | 4346823 | 4347182 |
| chr_3 | g588 | g588.t1 | cds | g588.t1.CDS1 | 4346823 | 4347182 |
| chr_3 | g588 | g588.t1 | exon | g588.t1.exon2 | 4347242 | 4347901 |
| chr_3 | g588 | g588.t1 | cds | g588.t1.CDS2 | 4347242 | 4347901 |
| chr_3 | g588 | g588.t1 | TSS | g588.t1 | NA | NA |
| chr_3 | g588 | g588.t1 | TTS | g588.t1 | NA | NA |
Sequences
>g588.t1 Gene=g588 Length=1020
ATGACTGTTATATGTGTCTTGTACATTCTTATTGGATTAAAACTACGTAAAAGCAAGCTC
TTATATGATAATAAAGGAAAAGGCTGTGATTCACAGAGATGTATAAAAGGTCAAACAAGA
GTTGTTCGAATGTTGATTGCTGTTGCTGTGTCATTTTTCTTATGCTTTGCACCATTTCAT
TCTCAACGAATTATGGCAGTGTATGGAAAAGTCATGAAAAAATCTTTCAATTCAGATGAT
ACTTTTATGAAAGTCTACATCGCATTAACTTATCTCTCAGGAATTTCTTATTTTTTGTCT
ACATGCATCAATCCATTCTTATACAACCTTATGAGTCATAAATTTAGAAATGCTTCAAAG
TTGACACTTGTCGTTCATTGCTTGAGTCGAACACCATCAACAAAGAAGAATCAATTGGGA
AACAATTATAGTGCGCTATCGCTTAAATTTAGCCCATTAGATGCAGCACGCATGACGTCA
GTTAATCGTGATCATTATATAGCATCAGGAAATAATAGTAGTAGTGATATAATAGAGATT
AAAGAAGGTATTGGTAGTATTGATGAAGTACGAAATTTCAGAACAACAAATGGAGTACCA
TATTTGATGGAAAATCATCATCCATATCATTCAGTCGTTCGTTTTGAACCGATGAATTTC
TCATTTAGTCAACAGACAACTACAACGACAATCAGTCGCGATAATAGCCTCAAAAATAAT
AATCATCATCATAATGACAACAGCAAATTGAATTCTATCGCTAAGAAATTAAAGAAATGC
ACGCAAAAGGCATTATTCAAGGCCAATGCCGGAGACGAGAAAGTGACAATTCCAAATGGT
AATGTCTCACACTTCGGACTTTTACCAGTTTCCTCCTCATCTGTCATTGTTGTTGATAGA
AATTCATTAAGTTTAAGAGAAGTCGATGAGGAGAATGCAGAATCGCCAAGAGTGATTATG
ATGAATGACGATGAATTTAACTTAGGACAGCATTTTTATGGAAGTAACTCTAACTCTTGA
>g588.t1 Gene=g588 Length=339
MTVICVLYILIGLKLRKSKLLYDNKGKGCDSQRCIKGQTRVVRMLIAVAVSFFLCFAPFH
SQRIMAVYGKVMKKSFNSDDTFMKVYIALTYLSGISYFLSTCINPFLYNLMSHKFRNASK
LTLVVHCLSRTPSTKKNQLGNNYSALSLKFSPLDAARMTSVNRDHYIASGNNSSSDIIEI
KEGIGSIDEVRNFRTTNGVPYLMENHHPYHSVVRFEPMNFSFSQQTTTTTISRDNSLKNN
NHHHNDNSKLNSIAKKLKKCTQKALFKANAGDEKVTIPNGNVSHFGLLPVSSSSVIVVDR
NSLSLREVDEENAESPRVIMMNDDEFNLGQHFYGSNSNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g588.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 1 | 161 | 7.8E-24 |
| 2 | g588.t1 | PANTHER | PTHR24243 | G-PROTEIN COUPLED RECEPTOR | 1 | 167 | 2.4E-53 |
| 3 | g588.t1 | PANTHER | PTHR24243:SF209 | PYROKININ 2 RECEPTOR 1-RELATED | 1 | 167 | 2.4E-53 |
| 5 | g588.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 41 | 65 | 1.4E-6 |
| 4 | g588.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 90 | 116 | 1.4E-6 |
| 1 | g588.t1 | Pfam | PF00001 | 7 transmembrane receptor (rhodopsin family) | 1 | 108 | 1.5E-9 |
| 9 | g588.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 40 | - |
| 11 | g588.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 41 | 61 | - |
| 10 | g588.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 62 | 80 | - |
| 12 | g588.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 81 | 107 | - |
| 8 | g588.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 108 | 339 | - |
| 15 | g588.t1 | ProSiteProfiles | PS50262 | G-protein coupled receptors family 1 profile. | 1 | 108 | 14.474 |
| 6 | g588.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 2 | 134 | 6.5E-19 |
| 14 | g588.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 44 | 66 | - |
| 13 | g588.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 108 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g588/g588.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g588.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0007186 | G protein-coupled receptor signaling pathway | BP |
| GO:0016021 | integral component of membrane | CC |
| GO:0004930 | G protein-coupled receptor 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.
