General information for g1311.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 5-hydroxytryptamine receptor 1.
Parent gene
- The parent gene g1311 is located on chr_3: 9530108..9531550 (- 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 | g1311 | g1311.t1 | isoform | g1311.t1 | 9530108 | 9531550 |
| chr_3 | g1311 | g1311.t1 | exon | g1311.t1.exon1 | 9530108 | 9531550 |
| chr_3 | g1311 | g1311.t1 | cds | g1311.t1.CDS1 | 9530108 | 9531550 |
| chr_3 | g1311 | g1311.t1 | TSS | g1311.t1 | NA | NA |
| chr_3 | g1311 | g1311.t1 | TTS | g1311.t1 | NA | NA |
Sequences
>g1311.t1 Gene=g1311 Length=1443
ATGGATGAGCTTATGGAGCGATTGTCATCATTTGTACTTAACTTTACCGACACAACAAGA
CATCATCATCACAACAGCATCAATTACAATTACTCAACTGTGACCGAAGTGTCGGTCGCA
TCATCGGAAGCATCTCAAATTGCAAGTGTGCTTCTATCGAATTTAACTACAACTCTTATA
AATTTACAACAAAATAACAGCAACAGCAGCACCATTGCACCCTATCCGTCACTCGCTGAA
ATTACCTCGTCGTCGTTTGCATCGTCAGCGGCATCATTTGGCACCACAACAACAACAACG
GTGCTAAATGATCTCGAAGCTGGCGATGAGAACGGCGACGATGGTACAACGAAACAAATC
AACGTCCAGACCATCTTAATCAGTATTATTCTGCTAGCTGTAATTTTAGGAACTATTATT
GGCAATATTCTCGTATGTGTTGCCGTATGTTTAGTGCGTAAGCTTAGGCGACCTTGTAAT
TATTTGCTTGTGTCGCTTGCCGTATCGGATTTATGTGTAGCAGTGCTTGTAATGCCAACA
GCACTTATGTACGAAGTGCTCAACGAATGGCGCTTTGGTACTTTCTTCTGTGATGTTTGG
GTCAGCTTTGATGTACTCTCGTGCACGGCATCGATCCTTAATTTGTGTGCAATATCAGTG
GACCGATATTGGGCCATAACGAAGCCTCTAGAATATGGCGTTAAAAGAACGCCACGACGA
ATGATGCTGTGTGTAGCGTTAGTATGGCTTGGTGCAGCCTGTATTTCACTTCCACCACTT
TTAATACTTGGCAATGAACACGAGATTGATGATCGACCAGCGTGTCTTGTATGTCAAAAT
TTTGGCTATCAAATTTATGCCACATTCGGTTCATTTTACATACCATTAGCTGTTATGTTA
TTCGTTTATTATCAGATATTTAGAGCAGCACGACGGATAGTTATGGATGAGAAACGAGCA
CAAACGAGACTAGAAGGTGCATTAAATGGTGTACCGCAGACAACTACAACACAAGAGAAA
CCTATCAATGCAATTGGTTCACCACATCAGAAAAAACTTCGATTTCAACTAGCAAAAGAA
CGAAAAGCATCAACTACGCTGGGTATAATTATGTCAGCATTTACCATCTGTTGGCTTCCA
TTTTTCATTCTTGCATTAGTTAAACCAATAACAGGTGAAGAATATCATACATTGTCATCG
ATATTCTTATGGTTAGGTTATGCCAATAGCCTCCTTAATCCAATAATTTATGCAACACTA
AATCGAGACTTCCGCAAGCCCTTCCAAGAAATTCTTTACTTTAGATGTTCAAGTCTAAAT
ATTATGATGCGTGAAGACTTTTATCATAGTCAATATGGTGATCCACATTCACAACGTGTG
GTAGTTAATACGGAAATTACGCAGCACAATTCACATCAGGGCGCGCGCGAAAGCTTTCTC
TGA
>g1311.t1 Gene=g1311 Length=480
MDELMERLSSFVLNFTDTTRHHHHNSINYNYSTVTEVSVASSEASQIASVLLSNLTTTLI
NLQQNNSNSSTIAPYPSLAEITSSSFASSAASFGTTTTTTVLNDLEAGDENGDDGTTKQI
NVQTILISIILLAVILGTIIGNILVCVAVCLVRKLRRPCNYLLVSLAVSDLCVAVLVMPT
ALMYEVLNEWRFGTFFCDVWVSFDVLSCTASILNLCAISVDRYWAITKPLEYGVKRTPRR
MMLCVALVWLGAACISLPPLLILGNEHEIDDRPACLVCQNFGYQIYATFGSFYIPLAVML
FVYYQIFRAARRIVMDEKRAQTRLEGALNGVPQTTTTQEKPINAIGSPHQKKLRFQLAKE
RKASTTLGIIMSAFTICWLPFFILALVKPITGEEYHTLSSIFLWLGYANSLLNPIIYATL
NRDFRKPFQEILYFRCSSLNIMMREDFYHSQYGDPHSQRVVVNTEITQHNSHQGARESFL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 28 | g1311.t1 | CDD | cd15329 | 7tmA_5-HT7 | 125 | 428 | 3.04005E-150 |
| 12 | g1311.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 116 | 446 | 3.8E-91 |
| 2 | g1311.t1 | PANTHER | PTHR24247:SF221 | 5-HYDROXYTRYPTAMINE RECEPTOR 1 | 124 | 464 | 3.3E-150 |
| 3 | g1311.t1 | PANTHER | PTHR24247 | 5-HYDROXYTRYPTAMINE RECEPTOR | 124 | 464 | 3.3E-150 |
| 8 | g1311.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 126 | 150 | 1.0E-51 |
| 7 | g1311.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 159 | 180 | 1.0E-51 |
| 9 | g1311.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 204 | 226 | 1.0E-51 |
| 5 | g1311.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 240 | 261 | 1.0E-51 |
| 4 | g1311.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 284 | 307 | 1.0E-51 |
| 6 | g1311.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 363 | 387 | 1.0E-51 |
| 10 | g1311.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 399 | 425 | 1.0E-51 |
| 1 | g1311.t1 | Pfam | PF00001 | 7 transmembrane receptor (rhodopsin family) | 141 | 417 | 1.5E-81 |
| 20 | g1311.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 124 | - |
| 21 | g1311.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 125 | 152 | - |
| 15 | g1311.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 153 | 158 | - |
| 22 | g1311.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 159 | 179 | - |
| 17 | g1311.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 180 | 198 | - |
| 27 | g1311.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 199 | 220 | - |
| 16 | g1311.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 221 | 240 | - |
| 24 | g1311.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 241 | 263 | - |
| 19 | g1311.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 264 | 282 | - |
| 23 | g1311.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 283 | 304 | - |
| 13 | g1311.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 305 | 366 | - |
| 26 | g1311.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 367 | 387 | - |
| 18 | g1311.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 388 | 398 | - |
| 25 | g1311.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 399 | 420 | - |
| 14 | g1311.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 421 | 480 | - |
| 37 | g1311.t1 | ProSitePatterns | PS00237 | G-protein coupled receptors family 1 signature. | 210 | 226 | - |
| 38 | g1311.t1 | ProSiteProfiles | PS50262 | G-protein coupled receptors family 1 profile. | 141 | 417 | 47.554 |
| 36 | g1311.t1 | SMART | SM01381 | 7TM_GPCR_Srsx_2 | 134 | 432 | 0.0015 |
| 11 | g1311.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 120 | 440 | 3.2E-75 |
| 32 | g1311.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 127 | 149 | - |
| 35 | g1311.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 184 | - |
| 29 | g1311.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 199 | 218 | - |
| 33 | g1311.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 243 | 265 | - |
| 31 | g1311.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 285 | 307 | - |
| 34 | g1311.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 364 | 386 | - |
| 30 | g1311.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 401 | 420 | - |
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 K04163 (5-hydroxytryptamine receptor 7)
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