General information for g13799.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Gonadotropin-releasing hormone II receptor.
Parent gene
- The parent gene g13799 is located on chr_1: 32463737..32473876 (+ 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 | g13799 | g13799.t1 | isoform | g13799.t1 | 32463737 | 32473565 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon1 | 32463737 | 32463879 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS1 | 32463737 | 32463879 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon2 | 32464307 | 32464430 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS2 | 32464307 | 32464430 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon3 | 32467013 | 32467161 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS3 | 32467013 | 32467161 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon4 | 32469181 | 32469280 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS4 | 32469181 | 32469280 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon5 | 32469609 | 32469698 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS5 | 32469609 | 32469698 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon6 | 32469758 | 32469875 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS6 | 32469758 | 32469875 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon7 | 32470186 | 32470260 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS7 | 32470186 | 32470260 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon8 | 32470806 | 32470854 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS8 | 32470806 | 32470854 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon9 | 32470918 | 32471062 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS9 | 32470918 | 32471062 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon10 | 32473189 | 32473283 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS10 | 32473189 | 32473283 |
| chr_1 | g13799 | g13799.t1 | exon | g13799.t1.exon11 | 32473478 | 32473565 |
| chr_1 | g13799 | g13799.t1 | cds | g13799.t1.CDS11 | 32473478 | 32473565 |
| chr_1 | g13799 | g13799.t1 | TSS | g13799.t1 | NA | NA |
| chr_1 | g13799 | g13799.t1 | TTS | g13799.t1 | NA | NA |
Sequences
>g13799.t1 Gene=g13799 Length=1176
ATGGATGAAGAAACAAATTCAAATGTCGTCACGACAATTTCGTCAATTAGTTTAGATGGA
AATGCTCAGCAAAATGTCAACACATCAATGACACCCGACATGGTTTTCAATGATGGTCAC
AAACTCTCAATTATTGTATACAGTATTTTAATGGTAATATCAGCAATTGGAAACATCACT
GTATTAACTATATTACTAAAAAGAAGATTGCGAAGTCCCTCGAGACTCGATATTATGCTG
ACACATCTGGCTATAGCCGATTTAATGGTGACGTTCATTCTCATGCCATTAGAAATTGGA
TGGGCGTACACTGTGCAGTGGCTTGCTGGTGACATCATGTGTCGTACAATGATGTTCTTT
CGTACATTTGGACTTTATTTGTCGTCTTTTGTGCTTGTCTGCATATCAGTTGATAGATAT
TATGCAGTGTTGAAACCACTTAATATGAAAGAGCATAGGGGAAAAATTATGATTATTTGT
GCCTGGATTGTATCAGCAATATGCAGTGCTCCACAGGCCTATATATTCCATGAAGAAACT
CATCCTAAAGTAAGAAATTATACACAATGTGTTACATTTAATGTTTTCAAGTCACCACAA
GGAGAATTGATATACAATGCTGTTGCAATGATAATGATGTATGCAGCGCCTTTACTTATA
ATCACTTTCTCCTATGGATCAATTTACTATGAGATTTTTCAAAAGAGTCGGATGAAGAAT
TCTGACAGATTTCGAAGATCAAGCTTGAATGTTTTGGGTCGAGCTAAAAGACGAACATTA
AGGATGACAATAACTATTGTGATTGTATTTGTGATTTGTTGGACGCCCTATTATGTCATG
GTAGTCTGGTTTTTTATTGATCCAGAGGAAGCCAACAATACAAACATAGTAGTTCAGAAG
GCATTGTATTTATTCGCATGTACAAATAGTTGCATGAATCCAATAGTTTATGGAGCGTTT
AATCTAAAACGCAACAGGACTGATCGTAATACGTTTAGTTTTAATTATAATTCCGAGTCA
AAAAGACGGACAGTGTGCTCACGTGTGGATAATTTTAGTCGCGAGTCATCGAAAACGATT
TGCATTAATTGTGGAGATTCGCTAATTAAAGCTACACCGTGCAATGTAATTAAAACATCT
AATGGTTCTACTGAGAAGATTCCGTTAACATCCTGA
>g13799.t1 Gene=g13799 Length=391
MDEETNSNVVTTISSISLDGNAQQNVNTSMTPDMVFNDGHKLSIIVYSILMVISAIGNIT
VLTILLKRRLRSPSRLDIMLTHLAIADLMVTFILMPLEIGWAYTVQWLAGDIMCRTMMFF
RTFGLYLSSFVLVCISVDRYYAVLKPLNMKEHRGKIMIICAWIVSAICSAPQAYIFHEET
HPKVRNYTQCVTFNVFKSPQGELIYNAVAMIMMYAAPLLIITFSYGSIYYEIFQKSRMKN
SDRFRRSSLNVLGRAKRRTLRMTITIVIVFVICWTPYYVMVVWFFIDPEEANNTNIVVQK
ALYLFACTNSCMNPIVYGAFNLKRNRTDRNTFSFNYNSESKRRTVCSRVDNFSRESSKTI
CINCGDSLIKATPCNVIKTSNGSTEKIPLTS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 28 | g13799.t1 | CDD | cd15382 | 7tmA_AKHR | 42 | 327 | 4.8328E-160 |
| 12 | g13799.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 13 | 365 | 4.5E-76 |
| 2 | g13799.t1 | PANTHER | PTHR24241:SF174 | CARDIOACCELERATORY PEPTIDE RECEPTOR-LIKE PROTEIN | 40 | 343 | 8.9E-102 |
| 3 | g13799.t1 | PANTHER | PTHR24241 | NEUROPEPTIDE RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR | 40 | 343 | 8.9E-102 |
| 5 | g13799.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 42 | 66 | 5.4E-39 |
| 10 | g13799.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 76 | 97 | 5.4E-39 |
| 7 | g13799.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 121 | 143 | 5.4E-39 |
| 6 | g13799.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 153 | 174 | 5.4E-39 |
| 4 | g13799.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 206 | 229 | 5.4E-39 |
| 9 | g13799.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 259 | 283 | 5.4E-39 |
| 8 | g13799.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 299 | 325 | 5.4E-39 |
| 1 | g13799.t1 | Pfam | PF00001 | 7 transmembrane receptor (rhodopsin family) | 57 | 317 | 1.0E-47 |
| 20 | g13799.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 43 | - |
| 26 | g13799.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 44 | 66 | - |
| 15 | g13799.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 67 | 77 | - |
| 23 | g13799.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 78 | 103 | - |
| 19 | g13799.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 104 | 122 | - |
| 27 | g13799.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 123 | 144 | - |
| 14 | g13799.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 145 | 155 | - |
| 22 | g13799.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 156 | 176 | - |
| 18 | g13799.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 177 | 202 | - |
| 24 | g13799.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 230 | - |
| 16 | g13799.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 231 | 263 | - |
| 25 | g13799.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 264 | 286 | - |
| 17 | g13799.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 287 | 300 | - |
| 21 | g13799.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 301 | 320 | - |
| 13 | g13799.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 321 | 391 | - |
| 37 | g13799.t1 | ProSitePatterns | PS00237 | G-protein coupled receptors family 1 signature. | 127 | 143 | - |
| 38 | g13799.t1 | ProSiteProfiles | PS50262 | G-protein coupled receptors family 1 profile. | 57 | 317 | 41.937 |
| 36 | g13799.t1 | SMART | SM01381 | 7TM_GPCR_Srsx_2 | 51 | 336 | 0.0033 |
| 11 | g13799.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 37 | 342 | 2.11E-65 |
| 35 | g13799.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 44 | 66 | - |
| 34 | g13799.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 78 | 100 | - |
| 30 | g13799.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 115 | 137 | - |
| 31 | g13799.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 158 | 176 | - |
| 32 | g13799.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 207 | 229 | - |
| 33 | g13799.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 264 | 286 | - |
| 29 | g13799.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 301 | 320 | - |
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 K04280 (gonadotropin-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