General information for g2735.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative THO complex protein 7.
Parent gene
- The parent gene g2735 is located on chr_3: 19931433..19932106 (- 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 | g2735 | g2735.t6 | TTS | g2735.t6 | 19931297 | 19931297 |
| chr_3 | g2735 | g2735.t6 | isoform | g2735.t6 | 19931433 | 19932106 |
| chr_3 | g2735 | g2735.t6 | exon | g2735.t6.exon1 | 19931433 | 19932031 |
| chr_3 | g2735 | g2735.t6 | cds | g2735.t6.CDS1 | 19931433 | 19932031 |
| chr_3 | g2735 | g2735.t6 | exon | g2735.t6.exon2 | 19932091 | 19932106 |
| chr_3 | g2735 | g2735.t6 | cds | g2735.t6.CDS2 | 19932091 | 19932106 |
| chr_3 | g2735 | g2735.t6 | TSS | g2735.t6 | 19932194 | 19932194 |
Sequences
>g2735.t6 Gene=g2735 Length=615
ATGTCGATTGCAGATGAACAAATTATCAAAAGGCGATTACAAATTGATGGAGAAGGAGTT
GGTGATGATCGTCGAATAAATCTTCTTTTAAGAACATTCATGAGATGGTGTAATGAAAAT
ACAGCTAATATGCAAAATCAGCTTTCACAACAAATGGCTCTTAGTGAATTTAGTATCTTA
AAATCTGAGATCTCCGAGCAAATGATTGATTCAGAATTGAAAAATTATAAGAAAGTTTCT
GATAATATAGCTGAAAAAATTGAGAGAGTAAAATGTGAAATTGATGAGTCAAAAAAGCAT
CTAATAACAGCTCAAGAAATTCGTCGCAATAAATTAGAGTATTCAAGTTTAGCTCGCTTA
ATAAAAGAACAACCGGATAGAAAAGAGATTATTGAAAAGCATGAGCAATTGAAAGCGGAA
CTGATTAAACAAAATGAGGAATTCCAAAAAATCAATCGAACACTTGAGAACCGACGAAAA
GACTTTGCATGCTTTATGATGTTAGCGAATGAACTTTTAAAAGATGCTGATTTTCCTGAT
TCTCAACCTTCTGATGCTGAAACAATAGTTGATGAAGATGAAATAGATGAAGTGGAAAAT
ATGATAATTGAATAA
>g2735.t6 Gene=g2735 Length=204
MSIADEQIIKRRLQIDGEGVGDDRRINLLLRTFMRWCNENTANMQNQLSQQMALSEFSIL
KSEISEQMIDSELKNYKKVSDNIAEKIERVKCEIDESKKHLITAQEIRRNKLEYSSLARL
IKEQPDRKEIIEKHEQLKAELIKQNEEFQKINRTLENRRKDFACFMMLANELLKDADFPD
SQPSDAETIVDEDEIDEVENMIIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2735.t6 | Coils | Coil | Coil | 73 | 93 | - |
| 5 | g2735.t6 | Coils | Coil | Coil | 127 | 158 | - |
| 4 | g2735.t6 | Coils | Coil | Coil | 195 | 204 | - |
| 2 | g2735.t6 | PANTHER | PTHR23405 | MAINTENANCE OF KILLER 16 MAK16 PROTEIN-RELATED | 4 | 175 | 5.4E-36 |
| 3 | g2735.t6 | PANTHER | PTHR23405:SF5 | THO COMPLEX SUBUNIT 7 HOMOLOG | 4 | 175 | 5.4E-36 |
| 1 | g2735.t6 | Pfam | PF05615 | Tho complex subunit 7 | 6 | 130 | 1.3E-21 |
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:0006397 | mRNA processing | BP |
| GO:0000445 | THO complex part of transcription export complex | CC |
KEGG
Orthology
- This transcript has been annotated with K13176 (THO complex subunit 7)
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.
