General information for g2316.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Golgi resident protein GCP60.
Parent gene
- The parent gene g2316 is located on chr_3: 16798814..16799946 (+ 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 | g2316 | g2316.t1 | TSS | g2316.t1 | 16798375 | 16798375 |
| chr_3 | g2316 | g2316.t1 | isoform | g2316.t1 | 16798442 | 16799946 |
| chr_3 | g2316 | g2316.t1 | exon | g2316.t1.exon1 | 16798442 | 16798574 |
| chr_3 | g2316 | g2316.t1 | cds | g2316.t1.CDS1 | 16798442 | 16798574 |
| chr_3 | g2316 | g2316.t1 | exon | g2316.t1.exon2 | 16798637 | 16798747 |
| chr_3 | g2316 | g2316.t1 | cds | g2316.t1.CDS2 | 16798637 | 16798747 |
| chr_3 | g2316 | g2316.t1 | exon | g2316.t1.exon3 | 16798814 | 16799946 |
| chr_3 | g2316 | g2316.t1 | cds | g2316.t1.CDS3 | 16798814 | 16799946 |
| chr_3 | g2316 | g2316.t1 | TTS | g2316.t1 | 16800345 | 16800345 |
Sequences
>g2316.t1 Gene=g2316 Length=1377
ATGGAGAATTTAGCGACAAATATAGGAAAATTATCAGTAGATGAAACGGGTCAAGAAGCA
AGTGAGCAAAATGAGATGAAGTGGGGCATGCAGTTAGTTGAAATATATCGATTAGCACTT
AAATTTTATAAAGATAAAGCAGGAAAAGCTGTACATTTAAGTTATGAAGATAATTTAAAA
CTAGTAGCATTAACAATGCAAGCTAGTCACGGACCAATAAGTCAACAAAAGTTAGAACCA
TTAGGAGTTTTTGATGTAATTGGACGCGACAGGAGAAATCAATGGACATTACTAGGAGAC
ATGAATAAATTACAAGCGATGGAGAGTTTTATTGATTTATTAGACAAAAAATGTGGCACT
TTTAAGCCATACGTTGAAGCTATAAAAAAAGATCATGAGGAAAAACAGCGACTTGAAGAA
ATAGAAAAGGCAAAAAAAGTAGAATTGCTAGAAGCAGAACGAAAACGAGAGGAAGAACAG
CGATTATTAGAGAATGAAATGCACCGTGAAGAAATTCAACGCAGAAAATTACAAGATGCA
TTGAATGAGCAAACTTTCTTTCAGTTCAAAGAATATAGTGAAAAACAGTATCCCGGTAAT
CCTGATCAGCAAGCAATTCTAATTCGACAACTTCAAAATGAACATTATCAACAGTATATT
CAACAACTTCAGTCACAATTTCAACAAGGCAACGAATTAGAACTCGAATCATCTTCAGAA
GGGCCTAGAAATTTAGAATCATGTAAAGAACAGGAAACAAGTTTAGTAGAAGAAAAAGAT
CAATGCGAAAGTGATAATGAGTCTGATGAATTTGCTGTAGTTCAGCCTGCTAACATGTGG
ACACGAAGTGATATCAAAGAATTCAAAATGAATGTTGCTAAAGGCAAAGGTGATGGTGTA
ATTAGAATCGGGCACGGCGATTGCGTGACAGTTCGTGTGCCAACACTAGAAGGTGGATCA
TCACTCTTTTGGGAATTTGCTACAGATAATTATGATATTGGATTTGGTGTTTATTTTGAA
TGGCAAAAACCTACTACGACAGAAGTAACAGTACACGTAAGTGAATCAGACGATGAAATG
GACGATAATGACTTGGGTGAGAATGATGAAGATGAAGAAATAACATGTAATGGAAATGTG
GATGATTTAGAATGTGGCGGTAGTCAAAATCAACTTCCGACAAAATCTACTTCATCATTA
CTTGATCGACCACCGTTATCAATCATTGTGCCAGTCTATAGACGAGAATGTCAAAATGAA
GTTTATTGTGGTTCACATGTTTATCCTGGAGAAGGGACATATTTATTAAAATTTGATAAT
TCTTTCAGCCTATGGCGTAGTAAAACTCTCTATTATTGTGTTTTTTACACTCGCTAA
>g2316.t1 Gene=g2316 Length=458
MENLATNIGKLSVDETGQEASEQNEMKWGMQLVEIYRLALKFYKDKAGKAVHLSYEDNLK
LVALTMQASHGPISQQKLEPLGVFDVIGRDRRNQWTLLGDMNKLQAMESFIDLLDKKCGT
FKPYVEAIKKDHEEKQRLEEIEKAKKVELLEAERKREEEQRLLENEMHREEIQRRKLQDA
LNEQTFFQFKEYSEKQYPGNPDQQAILIRQLQNEHYQQYIQQLQSQFQQGNELELESSSE
GPRNLESCKEQETSLVEEKDQCESDNESDEFAVVQPANMWTRSDIKEFKMNVAKGKGDGV
IRIGHGDCVTVRVPTLEGGSSLFWEFATDNYDIGFGVYFEWQKPTTTEVTVHVSESDDEM
DDNDLGENDEDEEITCNGNVDDLECGGSQNQLPTKSTSSLLDRPPLSIIVPVYRRECQNE
VYCGSHVYPGEGTYLLKFDNSFSLWRSKTLYYCVFYTR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2316.t1 | Coils | Coil | Coil | 135 | 180 | - |
| 9 | g2316.t1 | Gene3D | G3DSA:1.20.80.10 | - | 34 | 136 | 8.3E-13 |
| 8 | g2316.t1 | Gene3D | G3DSA:2.60.120.680 | CRAL/TRIO domain | 268 | 376 | 7.1E-25 |
| 7 | g2316.t1 | Gene3D | G3DSA:2.60.120.680 | CRAL/TRIO domain | 393 | 458 | 7.0E-19 |
| 3 | g2316.t1 | PANTHER | PTHR22973:SF12 | LD35087P | 17 | 458 | 6.6E-158 |
| 4 | g2316.t1 | PANTHER | PTHR22973 | LD35087P | 17 | 458 | 6.6E-158 |
| 2 | g2316.t1 | Pfam | PF00887 | Acyl CoA binding protein | 37 | 116 | 1.4E-13 |
| 1 | g2316.t1 | Pfam | PF13897 | Golgi-dynamics membrane-trafficking | 303 | 457 | 4.6E-56 |
| 11 | g2316.t1 | ProSiteProfiles | PS51228 | Acyl-CoA-binding (ACB) domain profile. | 32 | 123 | 24.321 |
| 12 | g2316.t1 | ProSiteProfiles | PS50866 | GOLD domain profile. | 285 | 458 | 10.614 |
| 6 | g2316.t1 | SUPERFAMILY | SSF47027 | Acyl-CoA binding protein | 32 | 121 | 3.4E-15 |
| 5 | g2316.t1 | SUPERFAMILY | SSF101576 | Supernatant protein factor (SPF), C-terminal domain | 298 | 457 | 9.15E-30 |
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:0000062 | fatty-acyl-CoA binding | MF |
KEGG
Orthology
- This transcript has been annotated with K23935 (golgi resident protein GCP60)
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.
