General information for g3409.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Exportin-2.
Parent gene
- The parent gene g3409 is located on chr_3: 25243822..25244994 (- 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 | g3409 | g3409.t1 | TTS | g3409.t1 | 25240695 | 25240695 |
| chr_3 | g3409 | g3409.t1 | isoform | g3409.t1 | 25240769 | 25243822 |
| chr_3 | g3409 | g3409.t1 | exon | g3409.t1.exon1 | 25240769 | 25242600 |
| chr_3 | g3409 | g3409.t1 | cds | g3409.t1.CDS1 | 25240769 | 25242600 |
| chr_3 | g3409 | g3409.t1 | exon | g3409.t1.exon2 | 25242661 | 25243653 |
| chr_3 | g3409 | g3409.t1 | cds | g3409.t1.CDS2 | 25242661 | 25243653 |
| chr_3 | g3409 | g3409.t1 | exon | g3409.t1.exon3 | 25243738 | 25243822 |
| chr_3 | g3409 | g3409.t1 | cds | g3409.t1.CDS3 | 25243738 | 25243822 |
| chr_3 | g3409 | g3409.t1 | TSS | g3409.t1 | 25243907 | 25243907 |
Sequences
>g3409.t1 Gene=g3409 Length=2910
ATGGATATCAACGATAACAACTTTCGTATATTGACCGACTATTTAGCAAACACTCTCAAC
CCTGATCCGAGTGTAAGAAGACCAGCTGAACAATTTCTTGAAACAGTCGGTCATAACCGT
AATTTTCCTCAATTACTGCTTATGCTTATTGATAAAGATGAAGTAGATATGACTATTAGA
GTCGCTGGCGCGATAGCCTTTAAAAATTACATCAAAAGAAATTGGGGAAGGAATTTTGAT
AATCCAGATGAACCAGATAGAATTCATGAGAGCGACAGAGAAGCAATTAAAAAAATGATT
GTTCCAATGATGCTCAAATCACCGATTCAGCTACAGAAACAGTTTAGCGATGCTATAAAA
ATTATCGGGAAATATGACTTTCCAAAAAAGTGGCCAGAATTAATGGACGAAATGATTGAA
AAGTTTCAAACTGGTGATTTTCATGTTATTAATGGAGTTTTGAAAACAGCTCATTCTCTC
TTCAAAAGATATCGCTATGAATTCAAGTCTCAAGAATTATGGGAAGAAATTAAACTTGTT
CTTGACAAGTTTGCAAAGCCATTAACCGACTTGTTGCTTGCTACATTGAATTTAAAAACT
ACTCATGGAAATAATGAAGCAGCACTCAAAATAATTTATGGCTCTTTAGAACTGATGTGC
AAAGTCTTTTATTCACTTAATTCACAAGATTTACCTGAATTTTTTGAGGATAACATGCAA
ACGTGGATGAAAACTTTTCATGAGTTACTTGTAACTGATGTACCATTTTTGAAAACTACT
GACGATGAAGAAGCTGGAACATTGGAAATGCTTCGTTCTCAAATTTGCGATAATATCACT
CTTTATGCACAAAAATATGATGAAGAATTTGCGCCATTTATGCAGCAATTCGTGACAGCA
GTTTGGGAATTGTTAGTCAATACAGGACAACAACCGAAGTATGATGCATTAGTTACAAAT
GCTTTGCATTTTCTAAGTACAGTAGCTGGAAGACAGCAATATCGTGGACTTTTCCAAGAT
CCAAATGTTTTAGCCAGCATTTGTGAAAAAGTTATTGTACCCAACATGGATTTCAGAAAT
TCTGATGAAGAGTTATTTGAAGACAATCCTGAAGAGTATATAAGAAAAGATATTGAAGGA
TCTGATATAGATACGAGACGTCGAGCTGTTTCGGATCTTTTACGTACACTCTCATCTCAT
TTTGAAGAAAAAATTATTGAATTGTTCAGTCAGTATTTGAATATGCTATTGGAACGTTTC
AAAGCAGATCCAAAAAATAATTGGCGCGCAAAAGATACCGCTATTTATTTAGTCACAACA
CTGGCAGCAAAAGGTGCAACTCAAAAACATGGTGTAACACAAGCATCTCAACTTGTTCCA
TTACCTCAGTTCTGTCAGAGTGATATTCTTCCCGAATTGGAACGATTAGATATTAATGAG
TTACCAGTGTTGAAAGCTGATGCTTTGAAGTTTCTTATGACATTCCGCACAGTACTTGGA
CAACAAATCATTAGTACAATTCCACAAGTTATTCGTCATTTGAATGCTGATAGTTTTGTA
GTTCATAGTTATGCAGCTTGCAATTTGGAAAAAATGCTTATCATGAAGGATGCTAGTGGA
AACAATATTATAACTCAAGAAATTTTGGCACCTTTCGCAGGAAGTGCAATTGAAGGATTA
TTCCAGGCATTAACAAAAGCAAACTCAAACGAAAATGAATATGTCATGAAGGCAATTATG
CGAACTTTCAATACATTAAACGAACATTCGATGCCATATATGGCAGCTGCTCTACCTAAG
CTCACTGAAATTTTGACACAAGTTTCTAAGAATCCATCAAAACCACATTTCAATCATTAT
CTGTTTGAGGCTATCGCCTTGGCAATCAAAATTGTATGCAAAATTGAACCAAATGCTGTC
TCTTCTTTTGAAGAAGCTCTGTTCCCACAATTTCAATATATTCTTCAAAATGATATAATG
GAATTTTTGCCTTATGTCTTTCAATTGTTGTCATTGCTCATGGAAATCAGACAAACGATT
GGTCAAGTTCCTGAGCCATATTTTGCCCTTTTTCCATGTTTATTAAGTCCAATTTTATGG
GAACGACCAGGCAACATTACTCCATTAATGAGATTATTGTGTACATTTGTCAAACAAGCT
TCACCACAAATAAAAGCTCAAGGAAAATTAATGAGCGTGTTAGGTGTCTTTCAAAAAATG
ATTGCTTCTAAGGCAAACGATCATGAAGGATTTTACTTGCTTCAAAATTTGATCTCGTAT
TATCCAAGAGAAGATTTGGATCAAATTATGCCACAAGTTTTTACATTACTCTTTCAACGT
TTAAGTTCATCGAAAACAACTAAATTTGTAAAATCTCTCATCGTTCTTTTCACTTTTTAT
GCTGCAAAAATTGGTCCAAGTGAGCTTATTCAGTTAATCGATGGAATTCAAAATCAAATG
TTTGGTATGGTTTGTCAACGTGTATTCATCACAGATTTGAACAAAGTATCAGGCGAAATT
GAACGTAAAATTGTTGCAATTGGGATGTCAAAAATTCTTTGCGATGCACCTGTAATGCTA
CAAGCTCCATATATCACCCATTGGCAATCACTCGTTCAAGTTTTAATTGAACTTTTTGAG
CTACCACCAGATGAGTCAAATATTGAAGGAGACAATTTCATAGAGGTCGACGATACAGCT
GGTTATCAAGTAGCTTATTCTCAATTAAATTTTGCATCAGTTAAAAAAGACGATCCGTTT
GCGGATGTGCCAGACATTCGACGATTTTTGATTGAAAAGTTGAGTCGACTACAGCAACCT
GAAATAAAATCAATGCTTCAACAAATATCATCTCAGCATCAAATTGCTCTACAAAAATAT
GCAAATCAATATGGAATTTCAATTATTTAA
>g3409.t1 Gene=g3409 Length=969
MDINDNNFRILTDYLANTLNPDPSVRRPAEQFLETVGHNRNFPQLLLMLIDKDEVDMTIR
VAGAIAFKNYIKRNWGRNFDNPDEPDRIHESDREAIKKMIVPMMLKSPIQLQKQFSDAIK
IIGKYDFPKKWPELMDEMIEKFQTGDFHVINGVLKTAHSLFKRYRYEFKSQELWEEIKLV
LDKFAKPLTDLLLATLNLKTTHGNNEAALKIIYGSLELMCKVFYSLNSQDLPEFFEDNMQ
TWMKTFHELLVTDVPFLKTTDDEEAGTLEMLRSQICDNITLYAQKYDEEFAPFMQQFVTA
VWELLVNTGQQPKYDALVTNALHFLSTVAGRQQYRGLFQDPNVLASICEKVIVPNMDFRN
SDEELFEDNPEEYIRKDIEGSDIDTRRRAVSDLLRTLSSHFEEKIIELFSQYLNMLLERF
KADPKNNWRAKDTAIYLVTTLAAKGATQKHGVTQASQLVPLPQFCQSDILPELERLDINE
LPVLKADALKFLMTFRTVLGQQIISTIPQVIRHLNADSFVVHSYAACNLEKMLIMKDASG
NNIITQEILAPFAGSAIEGLFQALTKANSNENEYVMKAIMRTFNTLNEHSMPYMAAALPK
LTEILTQVSKNPSKPHFNHYLFEAIALAIKIVCKIEPNAVSSFEEALFPQFQYILQNDIM
EFLPYVFQLLSLLMEIRQTIGQVPEPYFALFPCLLSPILWERPGNITPLMRLLCTFVKQA
SPQIKAQGKLMSVLGVFQKMIASKANDHEGFYLLQNLISYYPREDLDQIMPQVFTLLFQR
LSSSKTTKFVKSLIVLFTFYAAKIGPSELIQLIDGIQNQMFGMVCQRVFITDLNKVSGEI
ERKIVAIGMSKILCDAPVMLQAPYITHWQSLVQVLIELFELPPDESNIEGDNFIEVDDTA
GYQVAYSQLNFASVKKDDPFADVPDIRRFLIEKLSRLQQPEIKSMLQQISSQHQIALQKY
ANQYGISII
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g3409.t1 | Gene3D | G3DSA:1.25.10.10 | - | 7 | 966 | 0.000 |
| 4 | g3409.t1 | PANTHER | PTHR10997 | IMPORTIN-7, 8, 11 | 7 | 963 | 0.000 |
| 5 | g3409.t1 | PANTHER | PTHR10997:SF8 | EXPORTIN-2 | 7 | 963 | 0.000 |
| 2 | g3409.t1 | Pfam | PF03810 | Importin-beta N-terminal domain | 29 | 105 | 0.000 |
| 1 | g3409.t1 | Pfam | PF08506 | Cse1 | 160 | 528 | 0.000 |
| 3 | g3409.t1 | Pfam | PF03378 | CAS/CSE protein, C-terminus | 530 | 960 | 0.000 |
| 9 | g3409.t1 | ProSiteProfiles | PS50166 | Importin-beta N-terminal domain profile. | 29 | 106 | 19.459 |
| 7 | g3409.t1 | SMART | SM00913 | IBN_N_2 | 29 | 106 | 0.000 |
| 6 | g3409.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 1 | 947 | 0.000 |
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:0031267 | small GTPase binding | MF |
| GO:0006886 | intracellular protein transport | BP |
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K18423 (exportin-2 (importin alpha re-exporter))
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.
