General information for g7211.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Trafficking protein particle complex subunit 3.
Parent gene
- The parent gene g7211 is located on chr_2: 22108115..22109004 (+ 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 | g7211 | g7211.t4 | TSS | g7211.t4 | 22105961 | 22105961 |
| chr_2 | g7211 | g7211.t4 | isoform | g7211.t4 | 22106089 | 22108622 |
| chr_2 | g7211 | g7211.t4 | exon | g7211.t4.exon1 | 22106089 | 22106107 |
| chr_2 | g7211 | g7211.t4 | exon | g7211.t4.exon2 | 22106294 | 22106402 |
| chr_2 | g7211 | g7211.t4 | cds | g7211.t4.CDS1 | 22106370 | 22106402 |
| chr_2 | g7211 | g7211.t4 | exon | g7211.t4.exon3 | 22108070 | 22108275 |
| chr_2 | g7211 | g7211.t4 | cds | g7211.t4.CDS2 | 22108070 | 22108275 |
| chr_2 | g7211 | g7211.t4 | exon | g7211.t4.exon4 | 22108334 | 22108622 |
| chr_2 | g7211 | g7211.t4 | cds | g7211.t4.CDS3 | 22108334 | 22108622 |
| chr_2 | g7211 | g7211.t4 | TTS | g7211.t4 | 22108657 | 22108657 |
Sequences
>g7211.t4 Gene=g7211 Length=623
GCTATCTCGTAGTAAATATATTTTCTGGACAAATCACCATCAATATCAAATCAAGGATCA
AAATAAAGTTAAATCTTAAGAACTGATTGCCTAAAATGTCTCGACAAAGCCGTTTTGAAG
TGAAAAAAAATTCCGAATTGTTGACACTCACTTATGGAGCACTTGTTACTCAGATGCTGA
GAGATTTTGAAAATGTGGAAGATGTTAATAAGCAATTAGAACGACTTGGTTATAATATGG
GAATGAGACTAATTGAAGACTATCTCTCAAAAACTAATTCATCGCGATGTTTAGATATGC
GCGACACTGCTGAAAAAATTCAATCAGCATTTCGGATGTATTTAAATGTGCAGCCAACTA
TAACCAATTGGGCTCCCTCAGCAGACGAGTTTTCGCTTGTTTTTGATAATAATCCTTTAA
CAGAATTCGTTGAATTACCATCGGACTTGAACACTAGTCTGCGTTATTGCGGAATCATAA
ACGGTTGCATTCGAGGTGCTCTCGAAATGGTACAACTAGAAGTTCAATGTTGGTTTGTTC
AAGATCAATTAAAAGGAGATTCTACAACAGAGATTCGAGTAAAATTTATCCGAAAAATGG
ATGATACATTACCAGAAGATTAA
>g7211.t4 Gene=g7211 Length=175
MSRQSRFEVKKNSELLTLTYGALVTQMLRDFENVEDVNKQLERLGYNMGMRLIEDYLSKT
NSSRCLDMRDTAEKIQSAFRMYLNVQPTITNWAPSADEFSLVFDNNPLTEFVELPSDLNT
SLRYCGIINGCIRGALEMVQLEVQCWFVQDQLKGDSTTEIRVKFIRKMDDTLPED
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g7211.t4 | CDD | cd14942 | TRAPPC3_bet3 | 12 | 166 | 4.22315E-95 |
| 6 | g7211.t4 | Coils | Coil | Coil | 24 | 44 | - |
| 5 | g7211.t4 | Gene3D | G3DSA:3.30.1380.20 | Trafficking protein particle complex subunit 3 | 3 | 175 | 2.3E-68 |
| 2 | g7211.t4 | PANTHER | PTHR13048 | TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 3 | 10 | 174 | 8.5E-66 |
| 3 | g7211.t4 | PANTHER | PTHR13048:SF0 | TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT | 10 | 174 | 8.5E-66 |
| 7 | g7211.t4 | PIRSF | PIRSF018293 | TRAPP_1_Bet3 | 1 | 175 | 8.7E-76 |
| 1 | g7211.t4 | Pfam | PF04051 | Transport protein particle (TRAPP) component | 17 | 163 | 3.1E-32 |
| 4 | g7211.t4 | SUPERFAMILY | SSF111126 | Ligand-binding domain in the NO signalling and Golgi transport | 12 | 166 | 7.32E-48 |
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:0048193 | Golgi vesicle transport | BP |
| GO:0030008 | TRAPP complex | CC |
KEGG
Orthology
- This transcript has been annotated with K20302 (trafficking protein particle complex subunit 3)
Pathway
This gene does not belong to any 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.
