General information for g13891.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cholecystokinin receptor.
Parent gene
- The parent gene g13891 is located on chr_1: 33158080..33172687 (+ 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 | g13891 | g13891.t1 | isoform | g13891.t1 | 33158080 | 33172687 |
| chr_1 | g13891 | g13891.t1 | exon | g13891.t1.exon1 | 33158080 | 33158524 |
| chr_1 | g13891 | g13891.t1 | cds | g13891.t1.CDS1 | 33158080 | 33158524 |
| chr_1 | g13891 | g13891.t1 | exon | g13891.t1.exon2 | 33169221 | 33169418 |
| chr_1 | g13891 | g13891.t1 | cds | g13891.t1.CDS2 | 33169221 | 33169418 |
| chr_1 | g13891 | g13891.t1 | exon | g13891.t1.exon3 | 33169505 | 33169705 |
| chr_1 | g13891 | g13891.t1 | cds | g13891.t1.CDS3 | 33169505 | 33169705 |
| chr_1 | g13891 | g13891.t1 | exon | g13891.t1.exon4 | 33171653 | 33171860 |
| chr_1 | g13891 | g13891.t1 | cds | g13891.t1.CDS4 | 33171653 | 33171860 |
| chr_1 | g13891 | g13891.t1 | exon | g13891.t1.exon5 | 33172054 | 33172272 |
| chr_1 | g13891 | g13891.t1 | cds | g13891.t1.CDS5 | 33172054 | 33172272 |
| chr_1 | g13891 | g13891.t1 | exon | g13891.t1.exon6 | 33172378 | 33172687 |
| chr_1 | g13891 | g13891.t1 | cds | g13891.t1.CDS6 | 33172378 | 33172687 |
| chr_1 | g13891 | g13891.t1 | TTS | g13891.t1 | 33172933 | 33172933 |
| chr_1 | g13891 | g13891.t1 | TSS | g13891.t1 | NA | NA |
Sequences
>g13891.t1 Gene=g13891 Length=1581
ATGGATGATCGTGCTTTGAATAACAATAGTTGGATTAATCAAACGGATATACTAATTGTA
GATAGAAGCACAATCAATGAATTCATATCAATCACGCCAGTAACTTTTCTAGTTGATAAC
ACGACAATTAATTTCAATTTGTCTATATTTACAAATGCAAATCAGCAGCAGACACAGCAT
CAGCAGTCATGGATAACGATGGCATCGCGTGTAATTCCTTTATATTCGTTAATTTTCTTA
CTGGCTGTGATAGGGAATGCGCTCGTCATTATGACGCTTGTACAAAACAAGAGAATGCGA
ACAGTAACAAATTTGTTTCTGCTTAATCTTGCCATCTCTGATCTACTACTGTCCATGTTT
TGTATGCCTATTACACTCGTTGGTATGCTGCTGCGAGATTTTATTTTTGGAGAAATTATG
TGCAAACTTCTACCATATCTACAAGCCACATCAGTTAGTGTCTCGGCATGGACGCTTGTT
GCGATAAGTGTTGAGAGGTATTACGCAATTTGTCACCCCCTAAGATCAAGACGATGGCAA
ACACTCAAGCATGCATATAAATTAATCATCTTGGTGTGGCTATCTAGTCTCCTTTGCATG
CTGCCGATAGCGGCACTCAGTAAACTGATACCAACGAAAGAAGGTCACAACAAGTGTCGA
GAGGTTTGGCCTACGACTATACAATATGAAAAAATCTTCAATATTTTTCTTGATATGTAT
TTACTGGTGCTACCGTTGTTTGTGCTTCTTGCGACATATTTCATGATAACGAAAACACTA
TGGCAGGGAATGCGAACAGAACGGGATTTAAAGGATCAATTAAGCAATTATACGAAATGT
TTGTCATCGAAAAATTCGGTTGAAGTTTACATTAGAAATGGCGGCACTAAAAGCCGCTGT
TCTTCTGCATATTGTGGCGGTGGTAATAGTATAAAAGACGATGAAGCAGCACACATGACT
TTGCATCAATTGAAATCCAGTTCACAGGAATCAACTCAAACACAAATACAGAGTCTCGAT
TCAACTCGAGTGCATCCGCCTAATTTAAGAAGATCGAATGCCGAAAAAAGCCTGCTCAAT
AAGAAACGTGTTATAAAAATGCTTTTCGTAGTTGTGCTAGAGTTTTTCATATGTTGGACA
CCTTTGTACGTGATTAATACGATTGCTCTTTTTGATCAGATAATTGTCTATCAAAATCTC
GGCTATACTGCAATCAGCTTTTTTCAACTATTAGCCTATTCTTCATCGTGTTGTAATCCA
ATAACTTACTGCTTTATGTCAACCGGATTCAGGAAAGCATTTGTAAATTTATTTCGATGC
TTTCGCCAAAATCACCATCATCATCAGCAACGGCGACGTGTAAGTCTAAGTTGCTATGGA
AATGTTATGCCATCAACAGCAGCCACGCTGCATCCGCTTCATAATGGAAATGAAAATAAT
GGCGGACTTCTAAACTCCACGAGCGAGACTTTTGATCTCTCAAGGCAGCACTCTTATCGC
GCTAATAAGCGAAACGGTGCTAGTTGCGCCGGTGGTGATGAAAATGGCGAGACTTTTAAA
GAATCGAAGCGTGAAATGTAA
>g13891.t1 Gene=g13891 Length=526
MDDRALNNNSWINQTDILIVDRSTINEFISITPVTFLVDNTTINFNLSIFTNANQQQTQH
QQSWITMASRVIPLYSLIFLLAVIGNALVIMTLVQNKRMRTVTNLFLLNLAISDLLLSMF
CMPITLVGMLLRDFIFGEIMCKLLPYLQATSVSVSAWTLVAISVERYYAICHPLRSRRWQ
TLKHAYKLIILVWLSSLLCMLPIAALSKLIPTKEGHNKCREVWPTTIQYEKIFNIFLDMY
LLVLPLFVLLATYFMITKTLWQGMRTERDLKDQLSNYTKCLSSKNSVEVYIRNGGTKSRC
SSAYCGGGNSIKDDEAAHMTLHQLKSSSQESTQTQIQSLDSTRVHPPNLRRSNAEKSLLN
KKRVIKMLFVVVLEFFICWTPLYVINTIALFDQIIVYQNLGYTAISFFQLLAYSSSCCNP
ITYCFMSTGFRKAFVNLFRCFRQNHHHHQQRRRVSLSCYGNVMPSTAATLHPLHNGNENN
GGLLNSTSETFDLSRQHSYRANKRNGASCAGGDENGETFKESKREM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g13891.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 38 | 287 | 1.9E-63 |
| 19 | g13891.t1 | Gene3D | G3DSA:1.20.1070.10 | - | 323 | 468 | 5.1E-28 |
| 43 | g13891.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 503 | 526 | - |
| 3 | g13891.t1 | PANTHER | PTHR24238 | G-PROTEIN COUPLED RECEPTOR | 66 | 281 | 4.1E-135 |
| 5 | g13891.t1 | PANTHER | PTHR24238:SF46 | TYRAMINE/OCTOPAMINE RECEPTOR-LIKE PROTEIN | 66 | 281 | 4.1E-135 |
| 2 | g13891.t1 | PANTHER | PTHR24238 | G-PROTEIN COUPLED RECEPTOR | 315 | 445 | 4.1E-135 |
| 4 | g13891.t1 | PANTHER | PTHR24238:SF46 | TYRAMINE/OCTOPAMINE RECEPTOR-LIKE PROTEIN | 315 | 445 | 4.1E-135 |
| 14 | g13891.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 70 | 94 | 4.2E-46 |
| 17 | g13891.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 103 | 124 | 4.2E-46 |
| 10 | g13891.t1 | PRINTS | PR01822 | Cholecystokinin receptor family signature | 121 | 137 | 4.1E-17 |
| 15 | g13891.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 148 | 170 | 4.2E-46 |
| 9 | g13891.t1 | PRINTS | PR01822 | Cholecystokinin receptor family signature | 171 | 185 | 4.1E-17 |
| 13 | g13891.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 184 | 205 | 4.2E-46 |
| 11 | g13891.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 234 | 257 | 4.2E-46 |
| 6 | g13891.t1 | PRINTS | PR01822 | Cholecystokinin receptor family signature | 253 | 267 | 4.1E-17 |
| 8 | g13891.t1 | PRINTS | PR01822 | Cholecystokinin receptor family signature | 356 | 367 | 4.1E-17 |
| 16 | g13891.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 364 | 388 | 4.2E-46 |
| 7 | g13891.t1 | PRINTS | PR01822 | Cholecystokinin receptor family signature | 390 | 407 | 4.1E-17 |
| 12 | g13891.t1 | PRINTS | PR00237 | Rhodopsin-like GPCR superfamily signature | 405 | 431 | 4.2E-46 |
| 1 | g13891.t1 | Pfam | PF00001 | 7 transmembrane receptor (rhodopsin family) | 85 | 423 | 9.8E-63 |
| 24 | g13891.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 71 | - |
| 29 | g13891.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 72 | 94 | - |
| 23 | g13891.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 95 | 105 | - |
| 31 | g13891.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 106 | 131 | - |
| 27 | g13891.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 132 | 142 | - |
| 28 | g13891.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 143 | 164 | - |
| 21 | g13891.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 165 | 184 | - |
| 33 | g13891.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 185 | 205 | - |
| 25 | g13891.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 206 | 231 | - |
| 32 | g13891.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 232 | 256 | - |
| 22 | g13891.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 257 | 363 | - |
| 30 | g13891.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 364 | 385 | - |
| 26 | g13891.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 386 | 526 | - |
| 42 | g13891.t1 | ProSitePatterns | PS00237 | G-protein coupled receptors family 1 signature. | 154 | 170 | - |
| 44 | g13891.t1 | ProSiteProfiles | PS50262 | G-protein coupled receptors family 1 profile. | 85 | 423 | 47.734 |
| 41 | g13891.t1 | SMART | SM01381 | 7TM_GPCR_Srsx_2 | 79 | 438 | 1.0E-4 |
| 18 | g13891.t1 | SUPERFAMILY | SSF81321 | Family A G protein-coupled receptor-like | 35 | 454 | 8.79E-78 |
| 38 | g13891.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 71 | 93 | - |
| 35 | g13891.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 105 | 127 | - |
| 36 | g13891.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 142 | 164 | - |
| 40 | g13891.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 185 | 207 | - |
| 34 | g13891.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 235 | 257 | - |
| 39 | g13891.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 368 | 390 | - |
| 37 | g13891.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 405 | 427 | - |
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 K04194 (cholecystokinin A receptor)
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