General information for g10239.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Muscarinic acetylcholine receptor DM1.
Parent gene
- The parent gene g10239 is located on chr_1: 8445086..8449186 (- 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 | g10239 | g10239.t1 | isoform | g10239.t1 | 8445086 | 8449186 |
| chr_1 | g10239 | g10239.t1 | exon | g10239.t1.exon1 | 8445086 | 8445944 |
| chr_1 | g10239 | g10239.t1 | cds | g10239.t1.CDS1 | 8445086 | 8445944 |
| chr_1 | g10239 | g10239.t1 | exon | g10239.t1.exon2 | 8446005 | 8446192 |
| chr_1 | g10239 | g10239.t1 | cds | g10239.t1.CDS2 | 8446005 | 8446192 |
| chr_1 | g10239 | g10239.t1 | exon | g10239.t1.exon3 | 8446495 | 8446645 |
| chr_1 | g10239 | g10239.t1 | cds | g10239.t1.CDS3 | 8446495 | 8446645 |
| chr_1 | g10239 | g10239.t1 | exon | g10239.t1.exon4 | 8446770 | 8446923 |
| chr_1 | g10239 | g10239.t1 | cds | g10239.t1.CDS4 | 8446770 | 8446923 |
| chr_1 | g10239 | g10239.t1 | exon | g10239.t1.exon5 | 8447102 | 8447200 |
| chr_1 | g10239 | g10239.t1 | cds | g10239.t1.CDS5 | 8447102 | 8447200 |
| chr_1 | g10239 | g10239.t1 | exon | g10239.t1.exon6 | 8447522 | 8447891 |
| chr_1 | g10239 | g10239.t1 | cds | g10239.t1.CDS6 | 8447522 | 8447891 |
| chr_1 | g10239 | g10239.t1 | exon | g10239.t1.exon7 | 8448959 | 8449186 |
| chr_1 | g10239 | g10239.t1 | cds | g10239.t1.CDS7 | 8448959 | 8449186 |
| chr_1 | g10239 | g10239.t1 | TSS | g10239.t1 | NA | NA |
| chr_1 | g10239 | g10239.t1 | TTS | g10239.t1 | NA | NA |
Sequences
>g10239.t1 Gene=g10239 Length=2049
ATGACTCACTACACGACAACATTGAGCAGCATTACCTACAATTTTACTTCATATAGCGCG
TTCTTGGCACTTGAGAACTCACTGCACAACTTTACACAATACGAAAATGTATCAACAACG
ATCGCCTCGGTGGACCAACCGCCAACAATTTACACCTTCACGCAAAAAATCTTTATTGGT
ATTTTCTTCTTTGTTACATCGCTACTCACAGTTATCGGCAATTTTATGGTGATGATTTCA
TTTAAAATCGACAAACAACTCCAGACAATTTCAAATTATTTCCTATTTTCTCTGGCAATT
GCGGATTTTGCCATTGGACTAGTGTCGATGCCATTATTTACGGTGCATGTTATTATGGGA
TATTGGCCATTTGGTTCCTTCATTTGTGACACATGGCTGTCATTAGATTATCTAGCATCA
AATGCTTCCGTGCTTAATCTTCTTATCATTTCATTTGATCGTTATTTCTCCGTCACACGA
CCACTAACTTATCGTGCAAAGAGAACAAATCGTAAGGCTGCAATAATGATTTCACTAGCA
TGGCTCATAAGTCTTATACTTTGGCCACCTTGGATTTATTCGTGGCCCTATATTGAAGGA
ATGAGAACTGTTCCTGAAAAAGAATGTTACATTCAGTTCATCGAAACAAATCAATTGATT
ACATTCATCACTGCCATTGCCGCTTTTTATGTACCAGTGACGGTGATGTGCTTTCTATAT
TTTCGAATTTGGCGCGAAACGAAAAAGCGTCAGAAAGACTTGCCGAATCTACAAGCGGGC
GGTGGTGGTGGTGGTGGTGGATTTAGTCATCAAAGCATTAAAAAAGATGCATCGAAGCGA
TCAAACTCTAGTGATGAAACTTCTACAATAAATCATCAAATTGGCGAATTCATCGATCCA
AATTTATGGCATCCGCCTCCAATGGCAGGTGACAACGAAAGCAATAGTTATTATTCAGGT
GCACATCCACACTCGATTAACGATTTGTCAAGACGCACAAGTAAAAACTGCAAATCGGAT
TCAATGCTTGAAAGCATAAAGAACTGGTGTGTGGCATGGTGGCATTCAGGTCAGGAAGAA
GATTCATTTGAAGATTTTGGTGATTGGGTAGATTATGAAGGTGAACAGTCATATGGCGAT
TATGGCACGCCTTGCAGTGCTGAAACTCCTGTTCAAAGTTCTGTTTCTAGATGCACTTCA
TTAAATATAATTCGTGATCCTTACGCACGTGGAAGTTATTGTCAATCAATGGTCAATGAC
TCACCATCAACTTTCGTTAAAAATAGACAGCAGCAAACATTAGTTGCAACGCAGTCAAGT
AATGTTGGTATGAAGTCAGCCTCCAATAATCCCGATAAGGCGCCTTCATCATCAAATTTA
AAACGTTCATTATCACAAGATTCAGTTTATACAATATTGATAAGACTGCCAATTGAGAAT
AGTGGAAATAGTGAATCACGCGGTGCGGCGAGCAGCAGTGCTGAGAATGCCGAACTTAAA
CTTCCCTCCATTAAAATGTATCCCGAAGATGCGAACCTATCGAAAATAATGATGTCAAAA
TCAGGTCCAGATGAGTTTGGGACACTAAAGAAAGGTGAAAAAGATCCATTTGCACTCAAT
ACACCACACACTTCATACGAATTTAATAATCGATTACCACTAAATGCTAAAATAATTCCC
CGCAAAACGGTGCTTACTGCGCGCGAGAAGCAGCAACAAAAGGCTGCACTAAATAAGAAG
AAAAAATCACAGGAGAAACGACAAGAGTCGAAAGCAGCTAAAACATTGTCTGCAATTCTT
CTCTCTTTCATCGTTACATGGCTCCCATATAATATTCTCGTGCTGCTAAAACCGCTAACA
ACATGCGTGAATTGCATACCTCAAGAACTGTGGGATTTAGTCTATGCCCTTTGTTATCTA
AACTCCACAATTAATCCAATTTTGTATGCTCTCTGTAATGCTTCATTTCGACGAACATAT
GTTCGTATTCTTACATGTAAGTGGCAATCGAGAAATCGTGAGGGAATTTCAAGGGGAGTT
TATAATTAA
>g10239.t1 Gene=g10239 Length=682
MTHYTTTLSSITYNFTSYSAFLALENSLHNFTQYENVSTTIASVDQPPTIYTFTQKIFIG
IFFFVTSLLTVIGNFMVMISFKIDKQLQTISNYFLFSLAIADFAIGLVSMPLFTVHVIMG
YWPFGSFICDTWLSLDYLASNASVLNLLIISFDRYFSVTRPLTYRAKRTNRKAAIMISLA
WLISLILWPPWIYSWPYIEGMRTVPEKECYIQFIETNQLITFITAIAAFYVPVTVMCFLY
FRIWRETKKRQKDLPNLQAGGGGGGGGFSHQSIKKDASKRSNSSDETSTINHQIGEFIDP
NLWHPPPMAGDNESNSYYSGAHPHSINDLSRRTSKNCKSDSMLESIKNWCVAWWHSGQEE
DSFEDFGDWVDYEGEQSYGDYGTPCSAETPVQSSVSRCTSLNIIRDPYARGSYCQSMVND
SPSTFVKNRQQQTLVATQSSNVGMKSASNNPDKAPSSSNLKRSLSQDSVYTILIRLPIEN
SGNSESRGAASSSAENAELKLPSIKMYPEDANLSKIMMSKSGPDEFGTLKKGEKDPFALN
TPHTSYEFNNRLPLNAKIIPRKTVLTAREKQQQKAALNKKKKSQEKRQESKAAKTLSAIL
LSFIVTWLPYNILVLLKPLTTCVNCIPQELWDLVYALCYLNSTINPILYALCNASFRRTY
VRILTCKWQSRNREGISRGVYN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 25 | g10239.t1 | Coils | Coil | Coil | 567 | 587 | - |
| 23 | g10239.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 47 | 258 | 1.6E-67 |
| 24 | g10239.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 558 | 674 | 3.1E-26 |
| 50 | g10239.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 256 | 288 | - |
| 51 | g10239.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 436 | 462 | - |
| 49 | g10239.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 570 | 589 | - |
| 3 | g10239.t1 | PANTHER | PTHR24247:SF182 | MUSCARINIC ACETYLCHOLINE RECEPTOR M1 | 37 | 293 | 1.9E-140 |
| 5 | g10239.t1 | PANTHER | PTHR24247 | 5-HYDROXYTRYPTAMINE RECEPTOR | 37 | 293 | 1.9E-140 |
| 2 | g10239.t1 | PANTHER | PTHR24247:SF182 | MUSCARINIC ACETYLCHOLINE RECEPTOR M1 | 532 | 675 | 1.9E-140 |
| 4 | g10239.t1 | PANTHER | PTHR24247 | 5-HYDROXYTRYPTAMINE RECEPTOR | 532 | 675 | 1.9E-140 |
| 10 | g10239.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 58 | 82 | 7.7E-42 |
| 16 | g10239.t1 | PRINTS | PR00243 | Muscarinic acetylcholine receptor signature | 58 | 70 | 8.3E-33 |
| 13 | g10239.t1 | PRINTS | PR00243 | Muscarinic acetylcholine receptor signature | 79 | 87 | 8.3E-33 |
| 6 | g10239.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 91 | 112 | 7.7E-42 |
| 17 | g10239.t1 | PRINTS | PR00243 | Muscarinic acetylcholine receptor signature | 106 | 116 | 8.3E-33 |
| 8 | g10239.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 136 | 158 | 7.7E-42 |
| 20 | g10239.t1 | PRINTS | PR00243 | Muscarinic acetylcholine receptor signature | 137 | 146 | 8.3E-33 |
| 15 | g10239.t1 | PRINTS | PR00243 | Muscarinic acetylcholine receptor signature | 156 | 170 | 8.3E-33 |
| 7 | g10239.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 172 | 193 | 7.7E-42 |
| 21 | g10239.t1 | PRINTS | PR00243 | Muscarinic acetylcholine receptor signature | 193 | 203 | 8.3E-33 |
| 19 | g10239.t1 | PRINTS | PR00243 | Muscarinic acetylcholine receptor signature | 214 | 225 | 8.3E-33 |
| 9 | g10239.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 221 | 244 | 7.7E-42 |
| 12 | g10239.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 592 | 616 | 7.7E-42 |
| 14 | g10239.t1 | PRINTS | PR00243 | Muscarinic acetylcholine receptor signature | 621 | 639 | 8.3E-33 |
| 11 | g10239.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 631 | 657 | 7.7E-42 |
| 18 | g10239.t1 | PRINTS | PR00243 | Muscarinic acetylcholine receptor signature | 652 | 666 | 8.3E-33 |
| 1 | g10239.t1 | Pfam | PF00001 | 7 transmembrane receptor (rhodopsin family) | 73 | 649 | 5.8E-74 |
| 33 | g10239.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 56 | - |
| 35 | g10239.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 57 | 81 | - |
| 27 | g10239.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 82 | 92 | - |
| 34 | g10239.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 119 | - |
| 30 | g10239.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 120 | 130 | - |
| 37 | g10239.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 131 | 152 | - |
| 26 | g10239.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 153 | 172 | - |
| 36 | g10239.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 173 | 193 | - |
| 32 | g10239.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 194 | 218 | - |
| 40 | g10239.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 219 | 241 | - |
| 29 | g10239.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 242 | 591 | - |
| 39 | g10239.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 592 | 613 | - |
| 31 | g10239.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 614 | 632 | - |
| 38 | g10239.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 633 | 652 | - |
| 28 | g10239.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 653 | 682 | - |
| 48 | g10239.t1 | ProSitePatterns | PS00237 | G-protein coupled receptors family 1 signature. | 142 | 158 | - |
| 52 | g10239.t1 | ProSiteProfiles | PS50262 | G-protein coupled receptors family 1 profile. | 73 | 649 | 40.472 |
| 22 | g10239.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 30 | 674 | 6.59E-74 |
| 46 | g10239.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 81 | - |
| 42 | g10239.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 115 | - |
| 45 | g10239.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 152 | - |
| 41 | g10239.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 173 | 195 | - |
| 47 | g10239.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 219 | 241 | - |
| 44 | g10239.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 596 | 615 | - |
| 43 | g10239.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 630 | 652 | - |
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:0016907 | G protein-coupled acetylcholine receptor activity | MF |
| GO:0005887 | integral component of plasma membrane | CC |
| GO:0016021 | integral component of membrane | CC |
| GO:0004930 | G protein-coupled receptor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K04131 (muscarinic acetylcholine receptor M3)
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.
