Gene loci information

Transcript annotation

  • This transcript has been annotated as 5-hydroxytryptamine receptor 2B.

Parent gene

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.t2 TTS g6173.t2 14800142 14800142
chr_2 g6173 g6173.t2 isoform g6173.t2 14800763 14827541
chr_2 g6173 g6173.t2 exon g6173.t2.exon1 14800763 14801650
chr_2 g6173 g6173.t2 cds g6173.t2.CDS1 14800763 14801650
chr_2 g6173 g6173.t2 exon g6173.t2.exon2 14813462 14813756
chr_2 g6173 g6173.t2 cds g6173.t2.CDS2 14813462 14813756
chr_2 g6173 g6173.t2 exon g6173.t2.exon3 14815914 14816011
chr_2 g6173 g6173.t2 cds g6173.t2.CDS3 14815914 14816011
chr_2 g6173 g6173.t2 exon g6173.t2.exon4 14816081 14816226
chr_2 g6173 g6173.t2 cds g6173.t2.CDS4 14816081 14816226
chr_2 g6173 g6173.t2 exon g6173.t2.exon5 14826764 14826814
chr_2 g6173 g6173.t2 cds g6173.t2.CDS5 14826764 14826814
chr_2 g6173 g6173.t2 exon g6173.t2.exon6 14826875 14827541
chr_2 g6173 g6173.t2 cds g6173.t2.CDS6 14826875 14827541
chr_2 g6173 g6173.t2 TSS g6173.t2 NA NA

Sequences

>g6173.t2 Gene=g6173 Length=2145
ATGCCAGCAGTTTTGTCTAAACAATCAGGAGCAACAACAGTCATATATCTATCATCAGCT
TGGCCTTGGTCATTCTTCTCATTGTCATTGTCATCGTCATATTTGTGCACGAAAAGTATG
ACGCACTGGAGCGACTTTTTGACATCACTCGCACGAATTTTGCTACTCACATCGTCGACC
GTCATTTTTGCGAGTGGAATTTCAATTAATACGGTCGAAAATAATAATTTGTCAACGACA
ACAATTTCATCACATTCTTCATCATTACCAACAACTTTTCAGAGCTTACGGACGCATGAT
AATGCAATTAATTCAAGTAATAAGCAGCAAAATTCAATTAATCAATCATCTAAGTACAAT
AATGATCGATTGAATAAAGGAGTTGGTAGAATAATGACTGCCAACTCCAATGATAGTTGG
AGTAATTTAATAATAACAACAACAACAACCGCCGATAGTGGAAGTGCAAATTTAGTCGAC
TGTAATGACTTTACGGAACTGAAATTGCTGAATATTGTGATTTGTTCGATCAGTGATGTA
AATAGTAATATAATTAATGGCACAAATGCCGAAAATAGTACTTTCAATGACACATTTAAA
ATAAGTGATGATTTAAATAGATTTTATAATACAAATAGTTCTTTCTTTAATGGCACGGAG
GTATCAGTTATCACAACGGCTGTTGTATTAGGAATTATAATTCTAGCAACTGTCATTGGA
AATGTATTTGTAATAGCAGCAATATTGTTAGAGAAAAATTTACAAAGTGTAGCAAACTAT
TTAATCTTATCACTATCTGTCGCTGATCTGCTTGTCGCATGTCTAGTGATGCCTCTTTCT
GCAGTATATGAAATATCTCGTGAGTGGAAGCTTGGGCCAGAATTATGTGACATGTGGACA
AGTTCAGATGTTCTTTGCTGCACAGCTTCAATTCTACATCTTGTCGCAATCGCATTAGAT
CGGTACTGGGCTGTAACAGATATCGATTATGCCCATCAACGTACAGCAAAGCGAATAGGA
ATAATGATTGTAATCCTATGGATTCTTTCATTTCTTGTATCAATTGCACCAATGTTTGGC
TGGAAAGATCCCGAATGGGACAAAAGACTGGAGAATTACGAGTGCTTAGTGTCACAGGAT
GTTGGTTATCAGATATTTGCAACAGCATCGAGCTTTTATGTTCCACTGTTGGCAATATTA
TTCCTTTATTGGCGAATCTTTCTTGTTGCACGAAAACGCATTCGAAGGAGACAACAGGCA
AATGTACAAACTAGTGACAAACCCAAGCCCTTGGCAAATGCTTCTATATGTAATATACCA
CTAACATCTACATTTGGTATCCGATGGAAGGTCTCGTATGGTCAACAGCAAGAGCAGCAG
AAGAAGAAGCAAATGCCACCGACACCATCCAAACCGGGCGGAGTTGTAGCACAAGCTGTG
GGCAGTGGAAGCGGTGCGATGGCTGCAGCAGTTGTAGCCGTTATTGGTCGACCATTGCCA
ACAATAAGCGAGGCAACAACCACAACAACGACAACTGCATTTACAAATGTTTCATCAACA
AACACGAGTCCGGAAAAGTGCAATTATGGCAATGGACTCGACGATCGAATCGAAATGGAT
CCACCGACCAATGACATTTCAATTGCTTATCCATCAAATGTTTCATGTCCGCCTCATCCA
GCACCAAATGCATGGAAAAAACAACAACAGATGCTGCTTCAAAAACAAAATAATCCCGCT
GTGCCGGCTCTTCTATCACAAGCACAACAGCAGCAACAATTGAATAAAGCAAAGCCATCG
ATACTCAAGAAAAAGACTGCAAATGCAAACGATAACAGTTCAAAGCGAGAGAGAAAAGCA
GCGAAAACACTCGCAATTATTACTGGAGCATTTGTAGTGTGTTGGATGCCATTTTTTGTT
ATCGCACTCATTTTACCTATATGTGGTGAAGAATGCGAGGTATCACCAGTTATTATAAGC
TTATTCTTATGGTTAGGCTATTTTAATTCAACTCTAAATCCGATTCTCTATACAATTTTT
AATCAAGACTTCCGTAATGCATTTAAGCGCATTTTATGTGGCAGGAAAAGTGTAAGAAAA
CGAAATCGTAGGATGATGGGTGGCAATAATAGCAATGGTCGCTGA

>g6173.t2 Gene=g6173 Length=714
MPAVLSKQSGATTVIYLSSAWPWSFFSLSLSSSYLCTKSMTHWSDFLTSLARILLLTSST
VIFASGISINTVENNNLSTTTISSHSSSLPTTFQSLRTHDNAINSSNKQQNSINQSSKYN
NDRLNKGVGRIMTANSNDSWSNLIITTTTTADSGSANLVDCNDFTELKLLNIVICSISDV
NSNIINGTNAENSTFNDTFKISDDLNRFYNTNSSFFNGTEVSVITTAVVLGIIILATVIG
NVFVIAAILLEKNLQSVANYLILSLSVADLLVACLVMPLSAVYEISREWKLGPELCDMWT
SSDVLCCTASILHLVAIALDRYWAVTDIDYAHQRTAKRIGIMIVILWILSFLVSIAPMFG
WKDPEWDKRLENYECLVSQDVGYQIFATASSFYVPLLAILFLYWRIFLVARKRIRRRQQA
NVQTSDKPKPLANASICNIPLTSTFGIRWKVSYGQQQEQQKKKQMPPTPSKPGGVVAQAV
GSGSGAMAAAVVAVIGRPLPTISEATTTTTTTAFTNVSSTNTSPEKCNYGNGLDDRIEMD
PPTNDISIAYPSNVSCPPHPAPNAWKKQQQMLLQKQNNPAVPALLSQAQQQQQLNKAKPS
ILKKKTANANDNSSKRERKAAKTLAIITGAFVVCWMPFFVIALILPICGEECEVSPVIIS
LFLWLGYFNSTLNPILYTIFNQDFRNAFKRILCGRKSVRKRNRRMMGGNNSNGR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
33 g6173.t2 CDD cd15331 7tmA_5-HT1A_invertebrates 224 422 8.89629E-109
12 g6173.t2 Gene3D G3DSA:1.20.1070.10 - 210 441 9.3E-63
13 g6173.t2 Gene3D G3DSA:1.20.1070.10 - 563 698 5.0E-34
44 g6173.t2 MobiDBLite mobidb-lite consensus disorder prediction 456 475 -
45 g6173.t2 MobiDBLite mobidb-lite consensus disorder prediction 596 615 -
2 g6173.t2 PANTHER PTHR24247:SF231 5-HYDROXYTRYPTAMINE RECEPTOR 2A-RELATED 220 701 2.1E-114
3 g6173.t2 PANTHER PTHR24247 5-HYDROXYTRYPTAMINE RECEPTOR 220 701 2.1E-114
9 g6173.t2 PRINTS PR00237 Rhodopsin-like GPCR superfamily signature 225 249 2.8E-50
8 g6173.t2 PRINTS PR00237 Rhodopsin-like GPCR superfamily signature 258 279 2.8E-50
4 g6173.t2 PRINTS PR00237 Rhodopsin-like GPCR superfamily signature 303 325 2.8E-50
7 g6173.t2 PRINTS PR00237 Rhodopsin-like GPCR superfamily signature 338 359 2.8E-50
6 g6173.t2 PRINTS PR00237 Rhodopsin-like GPCR superfamily signature 384 407 2.8E-50
10 g6173.t2 PRINTS PR00237 Rhodopsin-like GPCR superfamily signature 620 644 2.8E-50
5 g6173.t2 PRINTS PR00237 Rhodopsin-like GPCR superfamily signature 659 685 2.8E-50
1 g6173.t2 Pfam PF00001 7 transmembrane receptor (rhodopsin family) 240 677 3.9E-77
20 g6173.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
30 g6173.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 37 -
18 g6173.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 38 48 -
26 g6173.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 49 69 -
21 g6173.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 70 222 -
25 g6173.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 223 250 -
14 g6173.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 251 256 -
27 g6173.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 257 279 -
23 g6173.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 280 298 -
31 g6173.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 299 319 -
16 g6173.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 320 338 -
32 g6173.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 339 361 -
19 g6173.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 362 380 -
24 g6173.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 381 408 -
17 g6173.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 409 623 -
29 g6173.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 624 645 -
22 g6173.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 646 656 -
28 g6173.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 657 680 -
15 g6173.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 681 714 -
43 g6173.t2 ProSitePatterns PS00237 G-protein coupled receptors family 1 signature. 309 325 -
46 g6173.t2 ProSiteProfiles PS50262 G-protein coupled receptors family 1 profile. 240 677 42.037
42 g6173.t2 SMART SM01381 7TM_GPCR_Srsx_2 234 692 1.3E-5
11 g6173.t2 SUPERFAMILY SSF81321 Family A G protein-coupled receptor-like 212 705 7.05E-78
34 g6173.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
39 g6173.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
38 g6173.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 228 250 -
40 g6173.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 260 282 -
41 g6173.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 339 361 -
36 g6173.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 385 407 -
37 g6173.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 625 647 -
35 g6173.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 657 679 -

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

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