General information for g4524.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Exportin-1.
Parent gene
- The parent gene g4524 is located on chr_2: 3057008..3058070 (- 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 | g4524 | g4524.t3 | TTS | g4524.t3 | 3053199 | 3053199 |
| chr_2 | g4524 | g4524.t3 | isoform | g4524.t3 | 3053755 | 3054928 |
| chr_2 | g4524 | g4524.t3 | exon | g4524.t3.exon1 | 3053755 | 3054501 |
| chr_2 | g4524 | g4524.t3 | cds | g4524.t3.CDS1 | 3054352 | 3054501 |
| chr_2 | g4524 | g4524.t3 | exon | g4524.t3.exon2 | 3054563 | 3054928 |
| chr_2 | g4524 | g4524.t3 | cds | g4524.t3.CDS2 | 3054563 | 3054856 |
| chr_2 | g4524 | g4524.t3 | TSS | g4524.t3 | NA | NA |
Sequences
>g4524.t3 Gene=g4524 Length=1113
CTTTTGCAAAATCTCGAGCAACACCCACAAGCAGCACAGAGTTTTTATCAAACCTACTTT
ACTGATATCCTTATGCAAATCTTTAGCGTCGTTACGGATACATCGCACACAGCATCGCTC
CAATCTCATGCTCAAATTCTCGCCCATATGTTCTCTTTAGTTGAAGCAAATGCGATAACA
GTTCCGCTTGGACCAATTCCAAATAACGTTCTCTATATTCAGGAATATGTTGCTTCACTT
CTGAAATCTGCATTTGGACATTTGACCGATAATCAAATAAAAGTTTTCGTTACTGGACTT
TTTAATTTAGATCACGATGTGGCACAGTTCAAAGAACATTTGCGAGATTTCATTATTCAA
ATTCGAGAAGTAACTGGTGATGATGATTCAGATCTCTATCTAGAAGAGCGAGAACAAGAA
CTAAAGAAAGCACAAGAAGAAAAACGTCGTCATCAGTTGACTGTGCCTGGTATGCTTAAT
CCGCATGAACTTCCGGAAGACATGCAGGACGAATAAAAGTATGATTTGCAAAAATTTATT
CTATAAACATCGTAAAAACATGAAACGAATGTACACACACAAAAAAGTTAGCTAGTTTTC
AGTATCAGGCAATTTCCAATAGATTCAAATGAAACTTTCAATGTGTATTGAATCCTCAAA
AAAAGTGACGGACGAAAACGACAAATTATAAACATATTGAATTCATTTTTTGCAAAAATT
TACATAAATCTTTTATACACAAAACGAGAATCATTCATAGAAGATAAAATGAGAATTATT
AAGTCAAATGAAATGTTGTGTTTTTGCATAAATGCTGATGATAAAAAAGATAGAAAGATT
ACATTTTAACATGATTGAGAGAGAGAAAGATAAAAATTAATGATATAAGTCATCGCATGT
GTGAGTGAAAATGTGTTAGCAGCACGAATCTATTTCATATTTTTGAAGTGTATGAAAAGT
TTTTTTTTTCTTGTATTTAAATAAGATTTTCTTATTTCTATGACATCACCATCACTATCG
CTTCATTCTTCAAATTTTAATTTCTAAGATACAAATGTGAATAAAAGAAAAACTAACGGC
GATAAAGTTAAAGAACTTTTTTTCTGAAAAATT
>g4524.t3 Gene=g4524 Length=147
MQIFSVVTDTSHTASLQSHAQILAHMFSLVEANAITVPLGPIPNNVLYIQEYVASLLKSA
FGHLTDNQIKVFVTGLFNLDHDVAQFKEHLRDFIIQIREVTGDDDSDLYLEEREQELKKA
QEEKRRHQLTVPGMLNPHELPEDMQDE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4524.t3 | Coils | Coil | Coil | 110 | 130 | - |
| 7 | g4524.t3 | Gene3D | G3DSA:1.25.10.10 | - | 1 | 142 | 6.3E-50 |
| 6 | g4524.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 119 | 147 | - |
| 2 | g4524.t3 | PANTHER | PTHR11223:SF4 | EXPORTIN 1 (CRM1 HOMOLOG, YEAST) B | 2 | 146 | 1.6E-56 |
| 3 | g4524.t3 | PANTHER | PTHR11223 | EXPORTIN 1/5 | 2 | 146 | 1.6E-56 |
| 1 | g4524.t3 | Pfam | PF08767 | CRM1 C terminal | 2 | 101 | 7.6E-31 |
| 5 | g4524.t3 | SMART | SM01102 | CRM1_C_2 | 1 | 102 | 1.0E-5 |
| 4 | g4524.t3 | SUPERFAMILY | SSF48371 | ARM repeat | 2 | 101 | 4.22E-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:0005049 | nuclear export signal receptor activity | 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.
