General information for g4614.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as THO complex subunit 3.
Parent gene
- The parent gene g4614 is located on chr_2: 3598499..3599951 (- 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 | g4614 | g4614.t2 | TTS | g4614.t2 | 3597431 | 3597431 |
| chr_2 | g4614 | g4614.t2 | isoform | g4614.t2 | 3597482 | 3598307 |
| chr_2 | g4614 | g4614.t2 | exon | g4614.t2.exon1 | 3597482 | 3598307 |
| chr_2 | g4614 | g4614.t2 | cds | g4614.t2.CDS1 | 3597482 | 3597958 |
| chr_2 | g4614 | g4614.t2 | TSS | g4614.t2 | 3598568 | 3598568 |
Sequences
>g4614.t2 Gene=g4614 Length=826
TGGTTCAAATGATAAAACAGTGGTCGTATATTCAGTTGATCGTGATAGAATTACAAAAGA
TAAATCATATCATGGACATACAGGTCCAGTCGATCAATTAATTTGGCATCACACAAATGC
GGATCTACTCGCGACTGCTTCAGGAGATAAAAGTGTTCGAATTTGGGATACAAAGATTCA
AAAAAATGTCACTACAGTAAATACAAAAGGTGAAAATATAAATATCACTTGGAGTAGAGA
TGGAAATACAATTGCAGTTGGTAATAAGGAAGATCTCATCACATTCATTGACACAAGAAC
TAATAAAATAAGAGCTGAGGAGAAATTCAATTTTGAAATCAATGAAATAATGTGGAACAG
AACAAGTGATCAAATGTTTTTGACCAGCGGGCAAGGCAGCATTCACGTTTTAAGTTATCC
AAATCTTGAAGTGCTCAATGTTCTCAAAGCTCATCCAGCAACGAATATTTGTATTGATTT
TGATCCATCTGGTAAATATTTTGCTGTTGGCTCAGCAGATGCACTAACATCTATTTGGGA
TGCTGATGAATTGGCCTGCATACGTGTTTTCTCTCGACTTGATTGGCCAGTAAGAACAGT
CAGCTTCAGTCATGACAGCAAACTTATTGCTTCGGCATCAGAAGATCATTTTATCGATAT
TTCATGCATTGAAACAGGTGAAAAAGTTTATGAGATTAAATTAGATGCAGCAACATTCTC
AATAGCATTTCATCCTAAACAATATTTAATTGCTTTTGCATGTGATGATAAGAAAGAAGA
TGGACGTGATGCAGGTAATTTTAAAGTTTTTGGATTTTCTGAATAA
>g4614.t2 Gene=g4614 Length=158
MWNRTSDQMFLTSGQGSIHVLSYPNLEVLNVLKAHPATNICIDFDPSGKYFAVGSADALT
SIWDADELACIRVFSRLDWPVRTVSFSHDSKLIASASEDHFIDISCIETGEKVYEIKLDA
ATFSIAFHPKQYLIAFACDDKKEDGRDAGNFKVFGFSE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4614.t2 | Gene3D | G3DSA:2.130.10.10 | - | 1 | 144 | 0.000000 |
| 3 | g4614.t2 | PANTHER | PTHR22839 | THO COMPLEX SUBUNIT 3 THO3 | 1 | 156 | 0.000000 |
| 2 | g4614.t2 | Pfam | PF00400 | WD domain, G-beta repeat | 29 | 64 | 0.000270 |
| 1 | g4614.t2 | Pfam | PF00400 | WD domain, G-beta repeat | 79 | 102 | 0.130000 |
| 9 | g4614.t2 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1 | 115 | 15.346000 |
| 10 | g4614.t2 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 32 | 73 | 11.377000 |
| 6 | g4614.t2 | SMART | SM00320 | WD40_4 | 25 | 64 | 0.000069 |
| 5 | g4614.t2 | SMART | SM00320 | WD40_4 | 67 | 106 | 0.920000 |
| 7 | g4614.t2 | SMART | SM00320 | WD40_4 | 109 | 155 | 160.000000 |
| 4 | g4614.t2 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 2 | 141 | 0.000000 |
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:0006406 | mRNA export from nucleus | BP |
| GO:0005515 | protein binding | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
