General information for g16827.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Exportin-4.
Parent gene
- The parent gene g16827 is located on chr_4: 11261125..11264139 (+ 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_4 | g16827 | g16827.t1 | TSS | g16827.t1 | 11260154 | 11260154 |
| chr_4 | g16827 | g16827.t1 | isoform | g16827.t1 | 11261125 | 11264139 |
| chr_4 | g16827 | g16827.t1 | exon | g16827.t1.exon1 | 11261125 | 11261178 |
| chr_4 | g16827 | g16827.t1 | cds | g16827.t1.CDS1 | 11261125 | 11261178 |
| chr_4 | g16827 | g16827.t1 | exon | g16827.t1.exon2 | 11261611 | 11262732 |
| chr_4 | g16827 | g16827.t1 | cds | g16827.t1.CDS2 | 11261611 | 11262732 |
| chr_4 | g16827 | g16827.t1 | exon | g16827.t1.exon3 | 11263152 | 11263325 |
| chr_4 | g16827 | g16827.t1 | cds | g16827.t1.CDS3 | 11263152 | 11263325 |
| chr_4 | g16827 | g16827.t1 | exon | g16827.t1.exon4 | 11263397 | 11263487 |
| chr_4 | g16827 | g16827.t1 | cds | g16827.t1.CDS4 | 11263397 | 11263487 |
| chr_4 | g16827 | g16827.t1 | exon | g16827.t1.exon5 | 11263541 | 11264139 |
| chr_4 | g16827 | g16827.t1 | cds | g16827.t1.CDS5 | 11263541 | 11264139 |
| chr_4 | g16827 | g16827.t1 | TTS | g16827.t1 | NA | NA |
Sequences
>g16827.t1 Gene=g16827 Length=2040
ATGGATATTGATCGAACAATTCATGAAATGGAACAAGCTGCAAATATTTTGTTGAATCCA
TACCAACAATCACGAGACTACATAAAAATGTCAGAAAATGTTTTCATTTCATTTGCAAAA
TCTCAATTTACAATTCCACAATGTTTTCTGATATTGGAAAAGACTCGTGTTGAACTTGTG
TTATTTGAGACAGTAAAAATGATTAAAAATATTTTAATTTATGAATGGCGTGGATTAAAT
GATGATGATAAGATGGTGATGAGGCAAAAACTTCTTGATTATGTCATAAATAATCCAAAT
CTTCCACCATCAGTAATTGAGCGTGTTTTGCAAATTGTTGCTATTATGGTAAAAAGAAAA
TTTTTGGAAGACGGTGGTGAGGAGTTAAAAAGCCTTTTGGCAAAAATTAAAGAAATGATT
TTTGAATCACAAGACAATCGTGTTCAACAAGTTTCATGCGCTTTTATTGTATCGATTTTG
CAAGAATTCACAAATACTGTCAAATCTGAAGATGTTGTACTGTCATTTGAGGAACATTTT
AGAGCTAAAAAAATGTTTGAAGCACGCGAGTTATTGCTCATTTTTCAACTTATATTTGAT
GCTCTTGAACGTATATTGCCAATTCTTGATATGAACACACCAACTCATTTTATCATGCTT
GAATCGTCATTGAAAATCATGGAATTAGTTCTATCATGGAGTTATATTACAGCACTTATA
CCTAAAAGGATAATTAAAGCATTTGAGAGTCTCAATAACATCAAACAACAACCGAGTCTT
CGTCTTTCGACTCTATGGCAACCACACATGCTGCGACGTAGAACAATTGAGGTTTTTTTC
ATCATTTATTGGCGCATTCGAGATCATGCAGTGCTACAACAAAAAGGAATGAATTGCTTA
ATTCAATTGAGCACTTTAAGTGGGCCTGTCTTTAGTCAACCAAATTCAAGCTTCACTTAT
TTCCGTGATTATGTTGAATTGCTCATGATGATGCTTAAAAACTGTGATGTTAATGAAAGA
GAAGCATTTGGCATTGCGACAATCATAAGAAAATTGCTCATGATTCATAATGTAAAGACT
GAATTGGCAAGAATGGATGAAGGATTAGTGAAGGAATTTTTGGGTGCAATGGTTTTGATG
ACTGTGAAATTTAATGAACTCAGTGTTAAAGAGAATCTCTCATATGGTGACACAGTCTAT
ACAGACGCAAGTAAATCCCTCCTTGAAGCATGGCTTGATGTAATTGATGTCGTTGAATTT
GCCTTTTCCGAAGAAGTTCATCATCATGCTCGAGTGATTTTTGATAAATTCATTGAATGT
CACATTGATGGAAGTGGAACAGATCAAGAAATTAAATGTTCAACATTCTTTGACACAATT
GCACTTTATACTGAAGCCAAACTCAATGAACTTTGCACTTGTATGGAAAATCCTGACAGT
GTAACAAAAATCTTCGACGCCCCTTACTTGGCCTATTATGATATCTGGGCATGTCTTTTG
TATGGATGCAATCGGAGAAAAACCTTTAATTCACGTGACATTAATCATCTGTCTGTCCAA
CTATCTCAAGAACATAAAATTGATTCTCAATCGACTCTCACAACACTTCAGTCTTCGGTT
CAACTTCAATTACCACAAGATAAATGCGATCCAACTGTTCGAATTTTTGCCAACATTTTG
AGACTTTGTGAAATGGAAAATCGTGCCATTGAAAGTGGTTTTGGTGCAACATGGTCACCA
TTGCTTTCAAGTACAATTATGTGGTTCATTGGCCAATATTTGAATATTTACATTCTCATT
GATGCAACTTATTATAATCCATTAGCGCCAGTTTTTGCTGAATTATTTACTATTGGTTCT
GCTCTACCTGCCAATGCATGGTGTATGAATTTCATACTTAATAAAGTTGCATGGAATATG
CACAAATATCATCATGATGTTGATGTTGTTGAAGAATCAATTCGACTATTTTTGGACATT
GTGAATATTCGTAATCAAAAACTTCACATGTTATTGAACTTGAAAGTTTTCAAAATTTAA
>g16827.t1 Gene=g16827 Length=679
MDIDRTIHEMEQAANILLNPYQQSRDYIKMSENVFISFAKSQFTIPQCFLILEKTRVELV
LFETVKMIKNILIYEWRGLNDDDKMVMRQKLLDYVINNPNLPPSVIERVLQIVAIMVKRK
FLEDGGEELKSLLAKIKEMIFESQDNRVQQVSCAFIVSILQEFTNTVKSEDVVLSFEEHF
RAKKMFEARELLLIFQLIFDALERILPILDMNTPTHFIMLESSLKIMELVLSWSYITALI
PKRIIKAFESLNNIKQQPSLRLSTLWQPHMLRRRTIEVFFIIYWRIRDHAVLQQKGMNCL
IQLSTLSGPVFSQPNSSFTYFRDYVELLMMMLKNCDVNEREAFGIATIIRKLLMIHNVKT
ELARMDEGLVKEFLGAMVLMTVKFNELSVKENLSYGDTVYTDASKSLLEAWLDVIDVVEF
AFSEEVHHHARVIFDKFIECHIDGSGTDQEIKCSTFFDTIALYTEAKLNELCTCMENPDS
VTKIFDAPYLAYYDIWACLLYGCNRRKTFNSRDINHLSVQLSQEHKIDSQSTLTTLQSSV
QLQLPQDKCDPTVRIFANILRLCEMENRAIESGFGATWSPLLSSTIMWFIGQYLNIYILI
DATYYNPLAPVFAELFTIGSALPANAWCMNFILNKVAWNMHKYHHDVDVVEESIRLFLDI
VNIRNQKLHMLLNLKVFKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g16827.t1 | PANTHER | PTHR12596:SF1 | EXPORTIN-4 | 7 | 441 | 0 |
| 4 | g16827.t1 | PANTHER | PTHR12596 | EXPORTIN 4,7-RELATED | 7 | 441 | 0 |
| 1 | g16827.t1 | PANTHER | PTHR12596:SF1 | EXPORTIN-4 | 545 | 666 | 0 |
| 3 | g16827.t1 | PANTHER | PTHR12596 | EXPORTIN 4,7-RELATED | 545 | 666 | 0 |
| 5 | g16827.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 9 | 618 | 0 |
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:0051169 | nuclear transport | BP |
| GO:0005049 | nuclear export signal receptor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K25203 (exportin-4)
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.
