General information for g3110.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Muscarinic acetylcholine receptor gar-2.
Parent gene
- The parent gene g3110 is located on chr_3: 22866416..22883259 (- 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 | g3110 | g3110.t1 | isoform | g3110.t1 | 22866416 | 22883259 |
| chr_3 | g3110 | g3110.t1 | exon | g3110.t1.exon1 | 22866416 | 22867711 |
| chr_3 | g3110 | g3110.t1 | cds | g3110.t1.CDS1 | 22866416 | 22867711 |
| chr_3 | g3110 | g3110.t1 | exon | g3110.t1.exon2 | 22867900 | 22868301 |
| chr_3 | g3110 | g3110.t1 | cds | g3110.t1.CDS2 | 22867900 | 22868301 |
| chr_3 | g3110 | g3110.t1 | exon | g3110.t1.exon3 | 22868397 | 22868620 |
| chr_3 | g3110 | g3110.t1 | cds | g3110.t1.CDS3 | 22868397 | 22868620 |
| chr_3 | g3110 | g3110.t1 | exon | g3110.t1.exon4 | 22868694 | 22868896 |
| chr_3 | g3110 | g3110.t1 | cds | g3110.t1.CDS4 | 22868694 | 22868896 |
| chr_3 | g3110 | g3110.t1 | exon | g3110.t1.exon5 | 22868962 | 22869477 |
| chr_3 | g3110 | g3110.t1 | cds | g3110.t1.CDS5 | 22868962 | 22869477 |
| chr_3 | g3110 | g3110.t1 | exon | g3110.t1.exon6 | 22883165 | 22883259 |
| chr_3 | g3110 | g3110.t1 | cds | g3110.t1.CDS6 | 22883165 | 22883259 |
| chr_3 | g3110 | g3110.t1 | TSS | g3110.t1 | NA | NA |
| chr_3 | g3110 | g3110.t1 | TTS | g3110.t1 | NA | NA |
Sequences
>g3110.t1 Gene=g3110 Length=2736
ATGGAGTCCGATAGTTATGACATGCACGTCAGTGAAATGGATTTTGGCAGAAATGTGTCT
CTTTATAGTATCAACTCTAAAGTTTTAACACAATGGAAAATGAAGAAGAAAAATGAACGT
TTAGAGAAGCTATGTAAATCAATATTAAAGCGCTTGCTCAACTATCAGCAATGTTCACAA
ATGTTAGACAATCGAGTTTCATCGCAATGGAATGAAACGAGTGTTGTGCAATGGATGAGA
GAGCACTCGAATGCAACAAGCTTAATTGATTTTCCATATTTTAATGGTACAACTTTGAAC
ATGAATGATACAAATGAGGGTGACGTGCTGATGTCAACGAATGGTCCATTGCAAGTACTC
CCGCCCTTTTCGATGTGGCAGACAATATTAATAGCAATATGCTTAGTTTTATGCATTTTA
TTGACCGTTGGTGGAAACACGCTCGTATTGATCGCTTTCATTGTCGATAGAAATATTCGA
CAGCCTAGTAATTATTTTATAGCTTCCCTTGCTGCAACTGATATGCTAATTGGGACTGTC
AGTATGCCATTCTATACTGTCTATGTACTAATGGGATATTGGGACTTGGGACCTCTTTTA
TGCGATCTTTGGCTTTCAGTCGATTATACAGTCTGTCTCGTGTCACAATATACTGTTCTA
CTTATCACAATTGATCGCTTTTGTTCTGTCAAAATTGCCGCAAAATATCGAAGTTGGCGT
ACACGAGACAAAGTCATTTGGATGGTGACAATCACATGGATAATTCCAGCACTTCTCTTT
TTTATATCAATATTCGGCTGGGAGCATTTTGTTGGATATCGAGATTTACTTCCAGGTCAA
TGTGCAGTACAGTTTCTGAAAGATCCTGTTTTCAATACAGCCTTAATTATCGGATACTAT
TGGACAACGTTAATTGTTTTATTTATTCTATATGGAGGTATTTACAAAACGGCTTATGAT
ATGCAAAAGAAGAGTGAAGCGAAACAAAGGAAAATGCAAAGCATGGTAGCACTTAGTGCA
GGCTTCACTGGAATGGCTGGAAGAGCGGCAGGTATTGGAATTTCATCAAAAGCAGAATCA
AGTATTGCAGGCGATAAATTGGCAATAACTCCAACAACAGCACAAGAGACAAATGAAAAG
TCTGACTCGAGTCGTAGTAATCAAGATGGTTCATCGGATGAGCCAATTGGTAAAGATGCA
AAAAGAAAATCATCATCAAGCGGAATAGGAAATAAGAAAATGTCTGTTGATAACAATAAA
ACAAGTGATAAGAAAAAGTTGAGTAAAAAAGAGAGCAGTAATGATCCATCAAAAGGAGAT
GAAAGATCTAGCAGTCCTGCATTTGACTCAGATGAGGATAGCTCCGGGAATAATCAACCG
ATTCAGGCGCTTGTTGTTCCAACTACGACAAAAAAGAGACCATCAATCGCAGGACTTTTG
GAAAATCTTTTACCAATAAGTAAATCAACATCAGGACATTTACACAATGATATTAGCAGT
TCAAATAATCCTTCACCACAACCGCCATTGTTACAACATCAATCCTTAAATCTTCTTGAT
CAAGACTTGAATTTAAATTCACATGAGGCGCAAAGTCTTTCGCAGCCAATCTCGCCGGAG
GCAATTGAACCAATAATAGTGAAAAGGGAAGAGAGAATAAAGAGCTTAGCAAAGACAATA
TTAACACCACCGAGTGATTTCAAAACGAGCCCAATGCTCCTTCGTAGTCGACCGCAAAGT
GTTATTAGTGATGGTGAGGGCTTAAGGGATTTATCAGATGATATCGTTTGTCGGATGGAT
GGCGCTGATTTGCGTTTTCTTGACGAGACTTCTGTAATGCAACCATCACCCTTGAATGAA
AACAGCCCACCCATACCAATTCATCATCGTCCAAATCAAAATAATCAAAATAATGTCGCA
ACGAATCCATCGCTATTGCATAAAGCTTTAATTCAAGCAACAGCTCAATCGCAGCCAAAG
GTTCTCTTGAAAACATCAAACCAACAATCAAGTCAAAGCGTTTCGCCACAGAGTGAGAAA
GAATCGAGTCATCATATGCCAGTGGTGCCAACAGTACAATTACAAACAGCATCACCACAA
GTCTCGCGTAAGCATAAAAAGGAAACGGAAGTATCAGTGACAAATCATAATGATAATAAA
CCAGTAACGACAATAATAGATAAAGTAAGTAAATTAGATGGAATGAATGATGATGAGCAG
CAGGATGAAGACATCGAGAAGCTTGTACAGGATGCAGCAAAATCCAATGTTGAATCGGCA
TTGCGAATTGATGAAACCAACAAGCTAATGCCAAAGTCTGATCGTCATAACAATAATAAT
AAAAATAATTCTAATGTCGCTAATAAAGATCGTAAAACATTCTTGCAAAATCTAAGAAAA
AGATTTCGTGTTGATGGTAAGAAAAAGTCAGGAACATTGCTTGGTTTTGTAGCAAATAGA
CAAAAATCAAAATCAGAAAATCGAGCGCGTAAAGCATTCCGAACAATTTCATTTATTCTT
GGTGCATTTGTGCTCTGTTGGACACCTTATCATATTTTTGCACTTGTAGAAGGTTTCTGT
CGTGATCCACCATGCGTTAATGAACATCTCTACATGTTCAGCTATTTTCTATGCTATGCA
AATTCACCACTCAATCCATTTTGTTATGCACTGGCCAATCAGCAATTTAAAAAAGTTTTC
ATGCGACTTTTGAAATTAGATTTTAATATACGATAA
>g3110.t1 Gene=g3110 Length=911
MESDSYDMHVSEMDFGRNVSLYSINSKVLTQWKMKKKNERLEKLCKSILKRLLNYQQCSQ
MLDNRVSSQWNETSVVQWMREHSNATSLIDFPYFNGTTLNMNDTNEGDVLMSTNGPLQVL
PPFSMWQTILIAICLVLCILLTVGGNTLVLIAFIVDRNIRQPSNYFIASLAATDMLIGTV
SMPFYTVYVLMGYWDLGPLLCDLWLSVDYTVCLVSQYTVLLITIDRFCSVKIAAKYRSWR
TRDKVIWMVTITWIIPALLFFISIFGWEHFVGYRDLLPGQCAVQFLKDPVFNTALIIGYY
WTTLIVLFILYGGIYKTAYDMQKKSEAKQRKMQSMVALSAGFTGMAGRAAGIGISSKAES
SIAGDKLAITPTTAQETNEKSDSSRSNQDGSSDEPIGKDAKRKSSSSGIGNKKMSVDNNK
TSDKKKLSKKESSNDPSKGDERSSSPAFDSDEDSSGNNQPIQALVVPTTTKKRPSIAGLL
ENLLPISKSTSGHLHNDISSSNNPSPQPPLLQHQSLNLLDQDLNLNSHEAQSLSQPISPE
AIEPIIVKREERIKSLAKTILTPPSDFKTSPMLLRSRPQSVISDGEGLRDLSDDIVCRMD
GADLRFLDETSVMQPSPLNENSPPIPIHHRPNQNNQNNVATNPSLLHKALIQATAQSQPK
VLLKTSNQQSSQSVSPQSEKESSHHMPVVPTVQLQTASPQVSRKHKKETEVSVTNHNDNK
PVTTIIDKVSKLDGMNDDEQQDEDIEKLVQDAAKSNVESALRIDETNKLMPKSDRHNNNN
KNNSNVANKDRKTFLQNLRKRFRVDGKKKSGTLLGFVANRQKSKSENRARKAFRTISFIL
GAFVLCWTPYHIFALVEGFCRDPPCVNEHLYMFSYFLCYANSPLNPFCYALANQQFKKVF
MRLLKLDFNIR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 29 | g3110.t1 | CDD | cd15302 | 7tmA_mAChR_GAR-2-like | 129 | 318 | 7.22876E-121 |
| 12 | g3110.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 121 | 344 | 3.7E-53 |
| 13 | g3110.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 812 | 909 | 4.2E-26 |
| 44 | g3110.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 370 | 470 | - |
| 43 | g3110.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 382 | 401 | - |
| 40 | g3110.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 417 | 448 | - |
| 46 | g3110.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 449 | 469 | - |
| 41 | g3110.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 662 | 712 | - |
| 42 | g3110.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 662 | 700 | - |
| 39 | g3110.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 765 | 790 | - |
| 45 | g3110.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 776 | 790 | - |
| 2 | g3110.t1 | PANTHER | PTHR24247:SF191 | MUSCARINIC ACETYLCHOLINE RECEPTOR, B-TYPE, ISOFORM A | 117 | 909 | 6.8E-212 |
| 3 | g3110.t1 | PANTHER | PTHR24247 | 5-HYDROXYTRYPTAMINE RECEPTOR | 117 | 909 | 6.8E-212 |
| 7 | g3110.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 130 | 154 | 1.1E-30 |
| 6 | g3110.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 163 | 184 | 1.1E-30 |
| 5 | g3110.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 208 | 230 | 1.1E-30 |
| 4 | g3110.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 292 | 315 | 1.1E-30 |
| 8 | g3110.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 832 | 856 | 1.1E-30 |
| 9 | g3110.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 871 | 897 | 1.1E-30 |
| 1 | g3110.t1 | Pfam | PF00001 | 7 transmembrane receptor (rhodopsin family) | 145 | 889 | 6.7E-62 |
| 18 | g3110.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 128 | - |
| 24 | g3110.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 129 | 153 | - |
| 16 | g3110.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 154 | 164 | - |
| 28 | g3110.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 165 | 191 | - |
| 20 | g3110.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 192 | 202 | - |
| 22 | g3110.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 224 | - |
| 15 | g3110.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 225 | 244 | - |
| 26 | g3110.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 245 | 267 | - |
| 21 | g3110.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 268 | 293 | - |
| 23 | g3110.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 294 | 314 | - |
| 14 | g3110.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 315 | 831 | - |
| 25 | g3110.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 832 | 850 | - |
| 19 | g3110.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 851 | 869 | - |
| 27 | g3110.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 870 | 892 | - |
| 17 | g3110.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 893 | 911 | - |
| 38 | g3110.t1 | ProSitePatterns | PS00237 | G-protein coupled receptors family 1 signature. | 214 | 230 | - |
| 47 | g3110.t1 | ProSiteProfiles | PS50262 | G-protein coupled receptors family 1 profile. | 145 | 889 | 28.195 |
| 37 | g3110.t1 | SMART | SM01381 | 7TM_GPCR_Srsx_2 | 141 | 904 | 0.0069 |
| 10 | g3110.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 93 | 333 | 7.51E-39 |
| 11 | g3110.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 820 | 906 | 3.2E-21 |
| 33 | g3110.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 130 | 152 | - |
| 32 | g3110.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 165 | 187 | - |
| 36 | g3110.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 202 | 224 | - |
| 30 | g3110.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 245 | 267 | - |
| 35 | g3110.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 293 | 315 | - |
| 34 | g3110.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 833 | 855 | - |
| 31 | g3110.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 870 | 892 | - |
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 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. There were no conditions that were differentially expressed