General information for g7560.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Neuropeptide CCHamide-1 receptor.
Parent gene
- The parent gene g7560 is located on chr_2: 24528965..24536419 (+ 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 | g7560 | g7560.t1 | isoform | g7560.t1 | 24528965 | 24536419 |
| chr_2 | g7560 | g7560.t1 | exon | g7560.t1.exon1 | 24528965 | 24529206 |
| chr_2 | g7560 | g7560.t1 | cds | g7560.t1.CDS1 | 24528965 | 24529206 |
| chr_2 | g7560 | g7560.t1 | exon | g7560.t1.exon2 | 24531887 | 24531970 |
| chr_2 | g7560 | g7560.t1 | cds | g7560.t1.CDS2 | 24531887 | 24531970 |
| chr_2 | g7560 | g7560.t1 | exon | g7560.t1.exon3 | 24532063 | 24532297 |
| chr_2 | g7560 | g7560.t1 | cds | g7560.t1.CDS3 | 24532063 | 24532297 |
| chr_2 | g7560 | g7560.t1 | exon | g7560.t1.exon4 | 24532423 | 24532632 |
| chr_2 | g7560 | g7560.t1 | cds | g7560.t1.CDS4 | 24532423 | 24532632 |
| chr_2 | g7560 | g7560.t1 | exon | g7560.t1.exon5 | 24534263 | 24534366 |
| chr_2 | g7560 | g7560.t1 | cds | g7560.t1.CDS5 | 24534263 | 24534366 |
| chr_2 | g7560 | g7560.t1 | exon | g7560.t1.exon6 | 24534944 | 24535081 |
| chr_2 | g7560 | g7560.t1 | cds | g7560.t1.CDS6 | 24534944 | 24535081 |
| chr_2 | g7560 | g7560.t1 | exon | g7560.t1.exon7 | 24535226 | 24535360 |
| chr_2 | g7560 | g7560.t1 | cds | g7560.t1.CDS7 | 24535226 | 24535360 |
| chr_2 | g7560 | g7560.t1 | exon | g7560.t1.exon8 | 24536335 | 24536419 |
| chr_2 | g7560 | g7560.t1 | cds | g7560.t1.CDS8 | 24536335 | 24536419 |
| chr_2 | g7560 | g7560.t1 | TSS | g7560.t1 | NA | NA |
| chr_2 | g7560 | g7560.t1 | TTS | g7560.t1 | NA | NA |
Sequences
>g7560.t1 Gene=g7560 Length=1233
ATGGAATTTTCTACTGAATCGACTAATGAGAATGAAAGTGCACTCTTTACTGAATATCCT
AACATAAGTTTGCTAGATAATGCAACGACCACACCAGTGCCATATGTAGACTATGAGGAT
CGATTAGAAACTTATTTAGTGCCCACAATTTTTGCACTAATTTTCATCATTGGCGTTTTA
GGAAATGGTTGCCTAATCCTAATTTTCTTCCGGCATCGAACTATGCGCAACGTGCCAAAT
ACATACATCCTTTCATTGGCAGTAGCCGACTTACTAGTGATAGTAACCACGGTTCCTTTA
ACGAGCGTTATATATGTTTTAAACAGCTGGCCTTGGGGAGAAACTCTCTGTACATTGTCG
GAATTTTTCAAAGATCTTTCAATTGGTGTATCGGTTTATACACTTACAGCTTTAAGCGGA
GATCGATTTATGGCGATTGTATGCCCATTAAGGAAATTTCATGGCAAAAGTGCAACGCGT
ACGACCATTTTTATCACTGTTTTGATTTGGCTTTTTGCTGCTGCATGTGGTATACCAGCA
ATCCATGGTTCTTACATAAGAAAAATTGTCATTAACAAAGAAGTTATTAGTATATGCTAC
CCATTTCCAACTGAATTTGGCAAAACTTACGCTCAAGGAATTGTAATATTTCGATTTCTC
GTTTACTACACGATTCCACTTTTGCTGATTGCAGTCATTTATGCAGTGATAGCGCAACAT
CTAATTTGCAGTCCTGTTATTGGAGAAATTAACCAAAATGCACAAAGACAGATTAAGGCG
AGACGAAAAGTAGCTGTTACGGTACTAGCATTTGTGGCTATATTTGCAATTTGTTTCCTA
CCAAGTCATGTATTTATGCTGTGGTTCTATTTCAATGACAATGCTGAAGAGGATTACAAT
GATTTTTGGCATATATTAAGAATGGTTGGATTCTGTTTATCCTTTGCTAACAGCTGTACA
AATCCCGTAGCTTTATATTGTGTCAGTGACGTTTTCCGTAAGCATTTCAATAGGTACTTG
TTGTGTAGAAGCTCGTCCATTTCGCGTCACCATACATACGACAAAAGTCGAGAAATGACC
GTCACAACTCAATCCACAATTTATCGTCGATATCCATCAAAAAGGTTCGGAAATCAAAGC
ATTAAAAGGAATGCTGCGGAAACTACAGTGATTCTTCAAGATACTGGAGACGAAAATGGT
TTGATTGATCACGAAAAGATGAGTTGTATGTAA
>g7560.t1 Gene=g7560 Length=410
MEFSTESTNENESALFTEYPNISLLDNATTTPVPYVDYEDRLETYLVPTIFALIFIIGVL
GNGCLILIFFRHRTMRNVPNTYILSLAVADLLVIVTTVPLTSVIYVLNSWPWGETLCTLS
EFFKDLSIGVSVYTLTALSGDRFMAIVCPLRKFHGKSATRTTIFITVLIWLFAAACGIPA
IHGSYIRKIVINKEVISICYPFPTEFGKTYAQGIVIFRFLVYYTIPLLLIAVIYAVIAQH
LICSPVIGEINQNAQRQIKARRKVAVTVLAFVAIFAICFLPSHVFMLWFYFNDNAEEDYN
DFWHILRMVGFCLSFANSCTNPVALYCVSDVFRKHFNRYLLCRSSSISRHHTYDKSREMT
VTTQSTIYRRYPSKRFGNQSIKRNAAETTVILQDTGDENGLIDHEKMSCM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 32 | g7560.t1 | CDD | cd15927 | 7tmA_Bombesin_R-like | 45 | 336 | 2.46183E-144 |
| 16 | g7560.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 20 | 378 | 1.1E-80 |
| 2 | g7560.t1 | PANTHER | PTHR45695 | LEUCOKININ RECEPTOR-RELATED | 20 | 386 | 4.8E-134 |
| 3 | g7560.t1 | PANTHER | PTHR45695:SF10 | NEUROPEPTIDE CCHAMIDE-2 RECEPTOR | 20 | 386 | 4.8E-134 |
| 6 | g7560.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 46 | 70 | 1.5E-36 |
| 10 | g7560.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 79 | 100 | 1.5E-36 |
| 14 | g7560.t1 | PRINTS | PR00358 | Bombesin receptor signature | 97 | 112 | 1.6E-7 |
| 12 | g7560.t1 | PRINTS | PR00358 | Bombesin receptor signature | 118 | 134 | 1.6E-7 |
| 5 | g7560.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 124 | 146 | 1.5E-36 |
| 4 | g7560.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 161 | 182 | 1.5E-36 |
| 9 | g7560.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 215 | 238 | 1.5E-36 |
| 11 | g7560.t1 | PRINTS | PR00358 | Bombesin receptor signature | 245 | 263 | 1.6E-7 |
| 8 | g7560.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 264 | 288 | 1.5E-36 |
| 7 | g7560.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 307 | 333 | 1.5E-36 |
| 13 | g7560.t1 | PRINTS | PR00358 | Bombesin receptor signature | 328 | 341 | 1.6E-7 |
| 1 | g7560.t1 | Pfam | PF00001 | 7 transmembrane receptor (rhodopsin family) | 61 | 323 | 1.6E-44 |
| 21 | g7560.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 44 | - |
| 26 | g7560.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 70 | - |
| 17 | g7560.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 71 | 81 | - |
| 29 | g7560.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 82 | 106 | - |
| 23 | g7560.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 107 | 125 | - |
| 28 | g7560.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 126 | 150 | - |
| 19 | g7560.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 151 | 161 | - |
| 31 | g7560.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 181 | - |
| 22 | g7560.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 182 | 219 | - |
| 25 | g7560.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 220 | 243 | - |
| 20 | g7560.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 244 | 263 | - |
| 30 | g7560.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 264 | 290 | - |
| 24 | g7560.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 291 | 301 | - |
| 27 | g7560.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 302 | 328 | - |
| 18 | g7560.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 329 | 410 | - |
| 41 | g7560.t1 | ProSiteProfiles | PS50262 | G-protein coupled receptors family 1 profile. | 61 | 325 | 39.208 |
| 40 | g7560.t1 | SMART | SM01381 | 7TM_GPCR_Srsx_2 | 55 | 340 | 0.0066 |
| 15 | g7560.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 10 | 351 | 1.46E-65 |
| 34 | g7560.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 48 | 70 | - |
| 39 | g7560.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 91 | 113 | - |
| 35 | g7560.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 128 | 150 | - |
| 38 | g7560.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 163 | 185 | - |
| 33 | g7560.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 214 | 236 | - |
| 36 | g7560.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 264 | 286 | - |
| 37 | g7560.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 306 | 328 | - |
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:0008528 | G protein-coupled peptide receptor activity | MF |
| 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 K04170 (bombesin receptor subtype-3)
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