General information for g499.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Pyrokinin-1 receptor.
Parent gene
- The parent gene g499 is located on chr_3: 3786105..3806732 (+ 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 | g499 | g499.t1 | isoform | g499.t1 | 3786105 | 3806732 |
| chr_3 | g499 | g499.t1 | exon | g499.t1.exon1 | 3786105 | 3786519 |
| chr_3 | g499 | g499.t1 | cds | g499.t1.CDS1 | 3786105 | 3786519 |
| chr_3 | g499 | g499.t1 | exon | g499.t1.exon2 | 3795826 | 3795961 |
| chr_3 | g499 | g499.t1 | cds | g499.t1.CDS2 | 3795826 | 3795961 |
| chr_3 | g499 | g499.t1 | exon | g499.t1.exon3 | 3798898 | 3798970 |
| chr_3 | g499 | g499.t1 | cds | g499.t1.CDS3 | 3798898 | 3798970 |
| chr_3 | g499 | g499.t1 | exon | g499.t1.exon4 | 3799242 | 3799280 |
| chr_3 | g499 | g499.t1 | cds | g499.t1.CDS4 | 3799242 | 3799280 |
| chr_3 | g499 | g499.t1 | exon | g499.t1.exon5 | 3799339 | 3799545 |
| chr_3 | g499 | g499.t1 | cds | g499.t1.CDS5 | 3799339 | 3799545 |
| chr_3 | g499 | g499.t1 | exon | g499.t1.exon6 | 3802169 | 3802412 |
| chr_3 | g499 | g499.t1 | cds | g499.t1.CDS6 | 3802169 | 3802412 |
| chr_3 | g499 | g499.t1 | exon | g499.t1.exon7 | 3803942 | 3804144 |
| chr_3 | g499 | g499.t1 | cds | g499.t1.CDS7 | 3803942 | 3804144 |
| chr_3 | g499 | g499.t1 | exon | g499.t1.exon8 | 3805710 | 3806732 |
| chr_3 | g499 | g499.t1 | cds | g499.t1.CDS8 | 3805710 | 3806732 |
| chr_3 | g499 | g499.t1 | TSS | g499.t1 | NA | NA |
| chr_3 | g499 | g499.t1 | TTS | g499.t1 | NA | NA |
Sequences
>g499.t1 Gene=g499 Length=2340
ATGAATAACGAAAGCAGCAGCAGAAATTATGACAATTATTTAAGACAAGAAACGGGAGAA
ATTGAAATTTATCGAAGACTTTTGAGCAGTTTTGATTATGTAAATTCAAAAAATTTAAAC
TCAAATGTGACAGTGTCAGATTTTGCAAAAATGCTTTTTACAGTGAATAGTTCGATTGAT
GATATTAATGATAGTTTAAGTAATGACATTATTCCAAGTGAAATTCCATTCAGTTATGCT
CATTCCCATGTGGTTTTAACAATATTAACTGTGGCATATGTGAGCATTTTTATTGCAGGA
GTTTTAGGCAATGTTGTGACATGCATCGTGATAGCAAAAAATAAAACTATGCACACTGCA
GTCAATTATTATCTTTTTAGTCTTGCTATATCGGATTTATGTTTACTTTTATGTGCATTG
CCTGATGAAGTTTATATGCTCTGGTACCCAGAGTATCCATTTAACGAGTATATTTGTAAA
TTACACAAGTTTGCTGCTGAGAGCTTCACGAATGCGACAGTATTCACCATTACTGCATTT
ACCATCGAAAGATATGTTGCCATTTGCAAGCCTTTTCTATCACATACGTTATCGAAACTT
TCTCGAGCATATAAATTTATACTGTTCATTTGGGTTATCAGTATGTGTTTAGCTGTTCCA
CAGACATTATTTACACTTCATCTTGATGAAACTTACAAAATTTGCATACCAAAAGCTGAG
CATGTGCATTTTTTTGTTGTTTCAACCTTTCTTCTATTTGTGATACCAATGTCAATAATA
ACAATTTTATATGTTCTGATTGGCCTGCAATTACGTAAATCGAAAATTGTGCAACGAGGT
GCTGTCAACGGTAGCAGTGTAAGATTAAAGAGAAAAATCCTTAAAATACCAACGAAGCAT
CAAACACTTGTGACCATGAACTGTGAATCACATTATAATGAAGCACTCATCAATCAACAG
CAGCAAGCACAGCATCGACCAAATGATATAAATAAAAACTACAAAAATAATTTAAGTGAA
CAAGAGAACATCATACCAGAAGATGGACGAATAAACTACTCGAACAATCGAACGCAAGTG
CACCATGGTTCGAGACATGTACTTAGAATGCTAGTTGTTGTCGTTATAGCATTCTTTATC
TGTTGGCTGCCTTTTCATAGTCAACGACTGATATTCTCATATATTGCGCCAGGAGTATTT
TCTGATAATCAGTCATTCGTTGTGAACAGTTTATCAGGCATCCTTTTCTTCACTTCAACG
TGCATCAATCCATTCCTCTACAATCTAATGTCACACAAGTTTCGTGAAGCTTTCAAGGTG
ACGATCTCAAAATATTTTTATACAAACAACCATGAGAAATTTCAATCACCAAACAGTCGT
AAGCTTTTTCGCACGACATCACAACGTTCCTGCTCAATGAACTCAACATCTATGAACACT
TGCTCTTCAGTGTGCTCAATGCAGCCATTCAATAATCAAAATCAGCAAATGACATTTCGA
TATTTTGACTCAAAGCGTCCATTGGTCGTTTCATTTAGGAGAGTTAATAAAATGACACAA
AATAACTTTACACTCGAGCATTGCAATTCAATCAATGATTTTCATCGTATTGACACTAGT
TGTGGCAGTAGCTATGGACTGAATTCAATAAAGAGTGTCAAAGAAAATGGACAGAAAACA
TTAATATCGAAATATTGTTTAAATGGCAACAATGTTAGCCGAAATGGAATAATAAGATCA
TCAAATGAAATTCAATCGTGTAGAAATTTCAATTATATTGACAAGCAAAGGGCACACTTT
GAAGTACAATATGATGAAGATGAGGACGATGAAATTTATCGATCAGATAAAGATAGAGTT
ACAATTACATATCCAAAAGAGAAATTTTATGGAAATGCCAAACTGATGTGTGGTGTAAAC
AACGATGAAGTATTAAGGACAAAAACATTGAGTGAACAAAATGACAATAGTCTCATTTTC
AACCATAAATTGCTACGAGGTCGTTTACTAATGAATAGACACAATAAAAGCCTCGTTAAT
GGTTCTCAAGTAAACCTTAACGAAATCAATGATGGCAACAAAACACTTCTTCAATTTAAT
TTGGCAAAAGTTCTGAATTCACGCAATGATGTAGTCTATGAGTCGCGTGTCAACAGAAAA
TGCTCATCTACACCGTCTTTATATAAAATCTCACACTTTCCAGGTTCTCTTGATATGGAC
TGTAGAAAAGAGCGAGAACAAGGGGAAAATTATGGGAATAACAACAAAGACAACTTCGTG
TCTATTTTAAGTTTGAAAAGAAAAGAAGCTTTTTGTGTAAAAACATCAAAGAGCTGTTAA
>g499.t1 Gene=g499 Length=779
MNNESSSRNYDNYLRQETGEIEIYRRLLSSFDYVNSKNLNSNVTVSDFAKMLFTVNSSID
DINDSLSNDIIPSEIPFSYAHSHVVLTILTVAYVSIFIAGVLGNVVTCIVIAKNKTMHTA
VNYYLFSLAISDLCLLLCALPDEVYMLWYPEYPFNEYICKLHKFAAESFTNATVFTITAF
TIERYVAICKPFLSHTLSKLSRAYKFILFIWVISMCLAVPQTLFTLHLDETYKICIPKAE
HVHFFVVSTFLLFVIPMSIITILYVLIGLQLRKSKIVQRGAVNGSSVRLKRKILKIPTKH
QTLVTMNCESHYNEALINQQQQAQHRPNDINKNYKNNLSEQENIIPEDGRINYSNNRTQV
HHGSRHVLRMLVVVVIAFFICWLPFHSQRLIFSYIAPGVFSDNQSFVVNSLSGILFFTST
CINPFLYNLMSHKFREAFKVTISKYFYTNNHEKFQSPNSRKLFRTTSQRSCSMNSTSMNT
CSSVCSMQPFNNQNQQMTFRYFDSKRPLVVSFRRVNKMTQNNFTLEHCNSINDFHRIDTS
CGSSYGLNSIKSVKENGQKTLISKYCLNGNNVSRNGIIRSSNEIQSCRNFNYIDKQRAHF
EVQYDEDEDDEIYRSDKDRVTITYPKEKFYGNAKLMCGVNNDEVLRTKTLSEQNDNSLIF
NHKLLRGRLLMNRHNKSLVNGSQVNLNEINDGNKTLLQFNLAKVLNSRNDVVYESRVNRK
CSSTPSLYKISHFPGSLDMDCRKEREQGENYGNNNKDNFVSILSLKRKEAFCVKTSKSC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g499.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 76 | 306 | 1.4E-51 |
| 15 | g499.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 337 | 454 | 1.7E-23 |
| 3 | g499.t1 | PANTHER | PTHR24243 | G-PROTEIN COUPLED RECEPTOR | 81 | 280 | 3.4E-113 |
| 5 | g499.t1 | PANTHER | PTHR24243:SF209 | PYROKININ 2 RECEPTOR 1-RELATED | 81 | 280 | 3.4E-113 |
| 2 | g499.t1 | PANTHER | PTHR24243 | G-PROTEIN COUPLED RECEPTOR | 366 | 480 | 3.4E-113 |
| 4 | g499.t1 | PANTHER | PTHR24243:SF209 | PYROKININ 2 RECEPTOR 1-RELATED | 366 | 480 | 3.4E-113 |
| 9 | g499.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 88 | 112 | 2.7E-40 |
| 7 | g499.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 121 | 142 | 2.7E-40 |
| 12 | g499.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 166 | 188 | 2.7E-40 |
| 11 | g499.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 202 | 223 | 2.7E-40 |
| 6 | g499.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 245 | 268 | 2.7E-40 |
| 8 | g499.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 367 | 391 | 2.7E-40 |
| 10 | g499.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 409 | 435 | 2.7E-40 |
| 1 | g499.t1 | Pfam | PF00001 | 7 transmembrane receptor (rhodopsin family) | 103 | 427 | 1.7E-49 |
| 21 | g499.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 83 | - |
| 27 | g499.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 84 | 111 | - |
| 18 | g499.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 112 | 122 | - |
| 26 | g499.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 123 | 148 | - |
| 23 | g499.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 149 | 167 | - |
| 25 | g499.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 168 | 186 | - |
| 17 | g499.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 187 | 205 | - |
| 24 | g499.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 206 | 224 | - |
| 22 | g499.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 225 | 243 | - |
| 28 | g499.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 244 | 269 | - |
| 19 | g499.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 270 | 366 | - |
| 30 | g499.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 367 | 385 | - |
| 20 | g499.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 386 | 404 | - |
| 29 | g499.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 405 | 426 | - |
| 16 | g499.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 427 | 779 | - |
| 38 | g499.t1 | ProSitePatterns | PS00237 | G-protein coupled receptors family 1 signature. | 172 | 188 | - |
| 40 | g499.t1 | ProSiteProfiles | PS50262 | G-protein coupled receptors family 1 profile. | 103 | 427 | 41.515 |
| 39 | g499.t1 | SMART | SM01381 | 7TM_GPCR_Srsx_2 | 97 | 442 | 0.0028 |
| 13 | g499.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 60 | 459 | 6.68E-65 |
| 36 | g499.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 84 | 106 | - |
| 33 | g499.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 119 | 141 | - |
| 37 | g499.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 164 | 186 | - |
| 32 | g499.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 206 | 225 | - |
| 35 | g499.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 245 | 267 | - |
| 34 | g499.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 367 | 386 | - |
| 31 | g499.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 406 | 428 | - |
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: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 transcript has been annotated with K04282 (thyrotropin-releasing hormone 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. There were no conditions that were differentially expressed