Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Golgi resident protein GCP60.

Parent gene

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.t9 TSS g2316.t9 16798375 16798375
chr_3 g2316 g2316.t9 isoform g2316.t9 16798814 16799946
chr_3 g2316 g2316.t9 exon g2316.t9.exon1 16798814 16799946
chr_3 g2316 g2316.t9 cds g2316.t9.CDS1 16798870 16799946
chr_3 g2316 g2316.t9 TTS g2316.t9 16800345 16800345

Sequences

>g2316.t9 Gene=g2316 Length=1133
GAGTTTTTGATGTAATTGGACGCGACAGGAGAAATCAATGGACATTACTAGGAGACATGA
ATAAATTACAAGCGATGGAGAGTTTTATTGATTTATTAGACAAAAAATGTGGCACTTTTA
AGCCATACGTTGAAGCTATAAAAAAAGATCATGAGGAAAAACAGCGACTTGAAGAAATAG
AAAAGGCAAAAAAAGTAGAATTGCTAGAAGCAGAACGAAAACGAGAGGAAGAACAGCGAT
TATTAGAGAATGAAATGCACCGTGAAGAAATTCAACGCAGAAAATTACAAGATGCATTGA
ATGAGCAAACTTTCTTTCAGTTCAAAGAATATAGTGAAAAACAGTATCCCGGTAATCCTG
ATCAGCAAGCAATTCTAATTCGACAACTTCAAAATGAACATTATCAACAGTATATTCAAC
AACTTCAGTCACAATTTCAACAAGGCAACGAATTAGAACTCGAATCATCTTCAGAAGGGC
CTAGAAATTTAGAATCATGTAAAGAACAGGAAACAAGTTTAGTAGAAGAAAAAGATCAAT
GCGAAAGTGATAATGAGTCTGATGAATTTGCTGTAGTTCAGCCTGCTAACATGTGGACAC
GAAGTGATATCAAAGAATTCAAAATGAATGTTGCTAAAGGCAAAGGTGATGGTGTAATTA
GAATCGGGCACGGCGATTGCGTGACAGTTCGTGTGCCAACACTAGAAGGTGGATCATCAC
TCTTTTGGGAATTTGCTACAGATAATTATGATATTGGATTTGGTGTTTATTTTGAATGGC
AAAAACCTACTACGACAGAAGTAACAGTACACGTAAGTGAATCAGACGATGAAATGGACG
ATAATGACTTGGGTGAGAATGATGAAGATGAAGAAATAACATGTAATGGAAATGTGGATG
ATTTAGAATGTGGCGGTAGTCAAAATCAACTTCCGACAAAATCTACTTCATCATTACTTG
ATCGACCACCGTTATCAATCATTGTGCCAGTCTATAGACGAGAATGTCAAAATGAAGTTT
ATTGTGGTTCACATGTTTATCCTGGAGAAGGGACATATTTATTAAAATTTGATAATTCTT
TCAGCCTATGGCGTAGTAAAACTCTCTATTATTGTGTTTTTTACACTCGCTAA

>g2316.t9 Gene=g2316 Length=358
MNKLQAMESFIDLLDKKCGTFKPYVEAIKKDHEEKQRLEEIEKAKKVELLEAERKREEEQ
RLLENEMHREEIQRRKLQDALNEQTFFQFKEYSEKQYPGNPDQQAILIRQLQNEHYQQYI
QQLQSQFQQGNELELESSSEGPRNLESCKEQETSLVEEKDQCESDNESDEFAVVQPANMW
TRSDIKEFKMNVAKGKGDGVIRIGHGDCVTVRVPTLEGGSSLFWEFATDNYDIGFGVYFE
WQKPTTTEVTVHVSESDDEMDDNDLGENDEDEEITCNGNVDDLECGGSQNQLPTKSTSSL
LDRPPLSIIVPVYRRECQNEVYCGSHVYPGEGTYLLKFDNSFSLWRSKTLYYCVFYTR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2316.t9 Coils Coil Coil 35 80 -
6 g2316.t9 Gene3D G3DSA:2.60.120.680 CRAL/TRIO domain 168 276 4.6E-25
5 g2316.t9 Gene3D G3DSA:2.60.120.680 CRAL/TRIO domain 292 358 4.8E-19
2 g2316.t9 PANTHER PTHR22973:SF12 LD35087P 1 358 5.3E-117
3 g2316.t9 PANTHER PTHR22973 LD35087P 1 358 5.3E-117
1 g2316.t9 Pfam PF13897 Golgi-dynamics membrane-trafficking 203 357 2.7E-56
8 g2316.t9 ProSiteProfiles PS51228 Acyl-CoA-binding (ACB) domain profile. 1 23 10.883
9 g2316.t9 ProSiteProfiles PS50866 GOLD domain profile. 185 358 10.614
4 g2316.t9 SUPERFAMILY SSF101576 Supernatant protein factor (SPF), C-terminal domain 198 357 5.23E-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

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.

Raw TPM values