General information for g6173.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 5-hydroxytryptamine receptor 2B.
Parent gene
- The parent gene g6173 is located on chr_2: 14800763..14827541 (- 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_2 | g6173 | g6173.t1 | TTS | g6173.t1 | 14800142 | 14800142 |
| chr_2 | g6173 | g6173.t1 | isoform | g6173.t1 | 14800763 | 14827541 |
| chr_2 | g6173 | g6173.t1 | exon | g6173.t1.exon1 | 14800763 | 14801557 |
| chr_2 | g6173 | g6173.t1 | cds | g6173.t1.CDS1 | 14800763 | 14801557 |
| chr_2 | g6173 | g6173.t1 | exon | g6173.t1.exon2 | 14813462 | 14813756 |
| chr_2 | g6173 | g6173.t1 | cds | g6173.t1.CDS2 | 14813462 | 14813756 |
| chr_2 | g6173 | g6173.t1 | exon | g6173.t1.exon3 | 14815914 | 14816011 |
| chr_2 | g6173 | g6173.t1 | cds | g6173.t1.CDS3 | 14815914 | 14816011 |
| chr_2 | g6173 | g6173.t1 | exon | g6173.t1.exon4 | 14816081 | 14816226 |
| chr_2 | g6173 | g6173.t1 | cds | g6173.t1.CDS4 | 14816081 | 14816226 |
| chr_2 | g6173 | g6173.t1 | exon | g6173.t1.exon5 | 14826764 | 14826814 |
| chr_2 | g6173 | g6173.t1 | cds | g6173.t1.CDS5 | 14826764 | 14826814 |
| chr_2 | g6173 | g6173.t1 | exon | g6173.t1.exon6 | 14826875 | 14827541 |
| chr_2 | g6173 | g6173.t1 | cds | g6173.t1.CDS6 | 14826875 | 14827541 |
| chr_2 | g6173 | g6173.t1 | TSS | g6173.t1 | NA | NA |
Sequences
>g6173.t1 Gene=g6173 Length=2052
ATGCCAGCAGTTTTGTCTAAACAATCAGGAGCAACAACAGTCATATATCTATCATCAGCT
TGGCCTTGGTCATTCTTCTCATTGTCATTGTCATCGTCATATTTGTGCACGAAAAGTATG
ACGCACTGGAGCGACTTTTTGACATCACTCGCACGAATTTTGCTACTCACATCGTCGACC
GTCATTTTTGCGAGTGGAATTTCAATTAATACGGTCGAAAATAATAATTTGTCAACGACA
ACAATTTCATCACATTCTTCATCATTACCAACAACTTTTCAGAGCTTACGGACGCATGAT
AATGCAATTAATTCAAGTAATAAGCAGCAAAATTCAATTAATCAATCATCTAAGTACAAT
AATGATCGATTGAATAAAGGAGTTGGTAGAATAATGACTGCCAACTCCAATGATAGTTGG
AGTAATTTAATAATAACAACAACAACAACCGCCGATAGTGGAAGTGCAAATTTAGTCGAC
TGTAATGACTTTACGGAACTGAAATTGCTGAATATTGTGATTTGTTCGATCAGTGATGTA
AATAGTAATATAATTAATGGCACAAATGCCGAAAATAGTACTTTCAATGACACATTTAAA
ATAAGTGATGATTTAAATAGATTTTATAATACAAATAGTTCTTTCTTTAATGGCACGGAG
GTATCAGTTATCACAACGGCTGTTGTATTAGGAATTATAATTCTAGCAACTGTCATTGGA
AATGTATTTGTAATAGCAGCAATATTGTTAGAGAAAAATTTACAAAGTGTAGCAAACTAT
TTAATCTTATCACTATCTGTCGCTGATCTGCTTGTCGCATGTCTAGTGATGCCTCTTTCT
GCAGTATATGAAATATCTCGTGAGTGGAAGCTTGGGCCAGAATTATGTGACATGTGGACA
AGTTCAGATGTTCTTTGCTGCACAGCTTCAATTCTACATCTTGTCGCAATCGCATTAGAT
CGGTACTGGGCTGTAACAGATATCGATTATGCCCATCAACGTACAGCAAAGCGAATAGGA
ATAATGATTGTAATCCTATGGATTCTTTCATTTCTTGTATCAATTGCACCAATGTTTGGC
TGGAAAGATCCCGAATGGGACAAAAGACTGGAGAATTACGAGTGCTTAGTGTCACAGGAT
GTTGGTTATCAGATATTTGCAACAGCATCGAGCTTTTATGTTCCACTGTTGGCAATATTA
TTCCTTTATTGGCGAATCTTTCTTGTTGCACGAAAACGCATTCGAAGGAGACAACAGGTC
TCGTATGGTCAACAGCAAGAGCAGCAGAAGAAGAAGCAAATGCCACCGACACCATCCAAA
CCGGGCGGAGTTGTAGCACAAGCTGTGGGCAGTGGAAGCGGTGCGATGGCTGCAGCAGTT
GTAGCCGTTATTGGTCGACCATTGCCAACAATAAGCGAGGCAACAACCACAACAACGACA
ACTGCATTTACAAATGTTTCATCAACAAACACGAGTCCGGAAAAGTGCAATTATGGCAAT
GGACTCGACGATCGAATCGAAATGGATCCACCGACCAATGACATTTCAATTGCTTATCCA
TCAAATGTTTCATGTCCGCCTCATCCAGCACCAAATGCATGGAAAAAACAACAACAGATG
CTGCTTCAAAAACAAAATAATCCCGCTGTGCCGGCTCTTCTATCACAAGCACAACAGCAG
CAACAATTGAATAAAGCAAAGCCATCGATACTCAAGAAAAAGACTGCAAATGCAAACGAT
AACAGTTCAAAGCGAGAGAGAAAAGCAGCGAAAACACTCGCAATTATTACTGGAGCATTT
GTAGTGTGTTGGATGCCATTTTTTGTTATCGCACTCATTTTACCTATATGTGGTGAAGAA
TGCGAGGTATCACCAGTTATTATAAGCTTATTCTTATGGTTAGGCTATTTTAATTCAACT
CTAAATCCGATTCTCTATACAATTTTTAATCAAGACTTCCGTAATGCATTTAAGCGCATT
TTATGTGGCAGGAAAAGTGTAAGAAAACGAAATCGTAGGATGATGGGTGGCAATAATAGC
AATGGTCGCTGA
>g6173.t1 Gene=g6173 Length=683
MPAVLSKQSGATTVIYLSSAWPWSFFSLSLSSSYLCTKSMTHWSDFLTSLARILLLTSST
VIFASGISINTVENNNLSTTTISSHSSSLPTTFQSLRTHDNAINSSNKQQNSINQSSKYN
NDRLNKGVGRIMTANSNDSWSNLIITTTTTADSGSANLVDCNDFTELKLLNIVICSISDV
NSNIINGTNAENSTFNDTFKISDDLNRFYNTNSSFFNGTEVSVITTAVVLGIIILATVIG
NVFVIAAILLEKNLQSVANYLILSLSVADLLVACLVMPLSAVYEISREWKLGPELCDMWT
SSDVLCCTASILHLVAIALDRYWAVTDIDYAHQRTAKRIGIMIVILWILSFLVSIAPMFG
WKDPEWDKRLENYECLVSQDVGYQIFATASSFYVPLLAILFLYWRIFLVARKRIRRRQQV
SYGQQQEQQKKKQMPPTPSKPGGVVAQAVGSGSGAMAAAVVAVIGRPLPTISEATTTTTT
TAFTNVSSTNTSPEKCNYGNGLDDRIEMDPPTNDISIAYPSNVSCPPHPAPNAWKKQQQM
LLQKQNNPAVPALLSQAQQQQQLNKAKPSILKKKTANANDNSSKRERKAAKTLAIITGAF
VVCWMPFFVIALILPICGEECEVSPVIISLFLWLGYFNSTLNPILYTIFNQDFRNAFKRI
LCGRKSVRKRNRRMMGGNNSNGR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 31 | g6173.t1 | CDD | cd15331 | 7tmA_5-HT1A_invertebrates | 224 | 657 | 6.45092E-131 |
| 42 | g6173.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 421 | 444 | - |
| 43 | g6173.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 421 | 435 | - |
| 44 | g6173.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 565 | 584 | - |
| 2 | g6173.t1 | PANTHER | PTHR24248 | ADRENERGIC RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR | 219 | 669 | 2.6E-114 |
| 3 | g6173.t1 | PANTHER | PTHR24248:SF132 | TYRAMINE/OCTOPAMINE RECEPTOR | 219 | 669 | 2.6E-114 |
| 8 | g6173.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 225 | 249 | 2.1E-50 |
| 7 | g6173.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 258 | 279 | 2.1E-50 |
| 4 | g6173.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 303 | 325 | 2.1E-50 |
| 6 | g6173.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 338 | 359 | 2.1E-50 |
| 5 | g6173.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 384 | 407 | 2.1E-50 |
| 10 | g6173.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 589 | 613 | 2.1E-50 |
| 9 | g6173.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 628 | 654 | 2.1E-50 |
| 1 | g6173.t1 | Pfam | PF00001 | 7 transmembrane receptor (rhodopsin family) | 240 | 646 | 2.1E-77 |
| 19 | g6173.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 19 | - |
| 28 | g6173.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 37 | - |
| 16 | g6173.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 38 | 48 | - |
| 25 | g6173.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 49 | 69 | - |
| 20 | g6173.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 70 | 222 | - |
| 24 | g6173.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 223 | 250 | - |
| 13 | g6173.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 251 | 256 | - |
| 27 | g6173.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 257 | 279 | - |
| 21 | g6173.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 280 | 298 | - |
| 29 | g6173.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 299 | 319 | - |
| 15 | g6173.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 320 | 338 | - |
| 30 | g6173.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 339 | 361 | - |
| 18 | g6173.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 362 | 380 | - |
| 23 | g6173.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 381 | 408 | - |
| 12 | g6173.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 409 | 592 | - |
| 22 | g6173.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 593 | 614 | - |
| 17 | g6173.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 615 | 625 | - |
| 26 | g6173.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 626 | 649 | - |
| 14 | g6173.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 650 | 683 | - |
| 41 | g6173.t1 | ProSitePatterns | PS00237 | G-protein coupled receptors family 1 signature. | 309 | 325 | - |
| 45 | g6173.t1 | ProSiteProfiles | PS50262 | G-protein coupled receptors family 1 profile. | 240 | 646 | 42.619 |
| 40 | g6173.t1 | SMART | SM01381 | 7TM_GPCR_Srsx_2 | 234 | 661 | 6.9E-6 |
| 11 | g6173.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 212 | 674 | 4.49E-79 |
| 33 | g6173.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 37 | g6173.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 50 | 72 | - |
| 36 | g6173.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 228 | 250 | - |
| 38 | g6173.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 260 | 282 | - |
| 39 | g6173.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 339 | 361 | - |
| 34 | g6173.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 385 | 407 | - |
| 35 | g6173.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 594 | 616 | - |
| 32 | g6173.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 626 | 648 | - |
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 K04153 (5-hydroxytryptamine receptor 1)
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