General information for g8203.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Nucleoporin Gle1.
Parent gene
- The parent gene g8203 is located on chr_2: 29057845..29063695 (+ 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 | g8203 | g8203.t1 | TSS | g8203.t1 | 29054900 | 29054900 |
| chr_2 | g8203 | g8203.t1 | isoform | g8203.t1 | 29055827 | 29057845 |
| chr_2 | g8203 | g8203.t1 | exon | g8203.t1.exon1 | 29055827 | 29055859 |
| chr_2 | g8203 | g8203.t1 | cds | g8203.t1.CDS1 | 29055827 | 29055859 |
| chr_2 | g8203 | g8203.t1 | exon | g8203.t1.exon2 | 29055928 | 29057169 |
| chr_2 | g8203 | g8203.t1 | cds | g8203.t1.CDS2 | 29055928 | 29057169 |
| chr_2 | g8203 | g8203.t1 | exon | g8203.t1.exon3 | 29057234 | 29057845 |
| chr_2 | g8203 | g8203.t1 | cds | g8203.t1.CDS3 | 29057234 | 29057845 |
| chr_2 | g8203 | g8203.t1 | TTS | g8203.t1 | 29057947 | 29057947 |
Sequences
>g8203.t1 Gene=g8203 Length=1887
ATGGAATCAGAAAATGTTATTGAATACGGTGAATCTAATAATCTTAATAAAAGTATGATA
CGTGCTGCTGAAATCTCTTCATTAATTTGTTCATTAACATTGGGCCCAAACGCTAATTTT
GAAGACAATGAGATCAACAATAAAATAGTAAACGGAAACGAAAGTGATCCTAAAAACACT
ATTCTCAAAAAATGCAGCAATAATAAAATGCCACAAATAACAACTTCTAATTTTGAAAAA
TCATCAAAAATGGACATAAATGACGTGAAAAATCTTCAGCAGCAGTTGCTTAAGGAGAAC
ACAAATAAAAAAATTGAAATAGAAGTTCGGAAAAAGTTAGAGCATAAACGTCTCGAAGAA
ATTGAAAAACATAAGCAAATAAGAAGCAACCTCGAGGCTTTAAAAGCTGAAGCTGAACGC
AGACATAAACTAAGAATGATAGAGTTTGATAGACAAGTCCAAAGGGAATTGGAACTAGAA
AGGCAACGAGAATTAGCTTATCAAGAGCAAAGAAAGCAACTTGCTGCTAATACTCGAAAA
ATTCAAGAAGAAAAAGAGAAACTTTTAAGAGAGCAAATCAGAAAATGGATTGAGATTAGT
ACAAAACAAGAAGATGTTTTTACGAAAATGCTGAGTATATGTAATTCAGAATTTAAATTA
TTAGATACATATAAAAAGGAGTTAAAAAGTCTTCAAACTCTTAGAGATGCAAATATTAAT
TCTCTAGAAATTTTGAAAAGCGTTTGTGTAAAATTAGATGCCTTGTCACAAAAATTTCAA
AAAGATTTGACCGAATTTGCTACTGCAAAAAGAGAAGCTGAAGAGAAGGAAAGAGAGAAA
CAACTATTGATTGCTGCTGCACAAAAACAACAACAAGAAAAAGAAATTGTGACACCTATA
CAAATAGCAGCTGTAACACCTCAATCTCATGACCAAATAGACCAAATACCTTCTGCTGAC
ACAAACTTACTATTATCTGAATCATTTAAACAATTTAATGATTATATGCAATTATTAGCC
ATGAAAAAAGCTCAAACAAAACGACTTGACGATACTCCAGAACTACAACAAATTAGATTT
GCACTTAAATCGGCAGTAAATTTCCCTATAAACCTTTTAAATGAAAAGAATAAAACGACA
TTAATCGATGGATATCAAAAATTATTCAATTTGCTCTCTGGTCAAAGAGTGAATACAGCC
AAAGGAAGTGTTTCAATATTAGATCATAATGAAGCTTCTGACTGGTGTAAATTAAGAATA
GCAGAAAAACTGATTGATCGCTGTGATAAAGAATCAAATATTGTGTTTTACTCTGCAGCA
ATTGCTATTTCATTATGGACAAAATTTCCCGATTTTGGTGAAATTTTTAAAGGTCTATTA
TATAAAGAATGTCCTTTTTTAATGCCACATAAGCCAACTAAACAGAGTACACAAACTAAT
GAGGAATTTTTATCGACTTGGGGGTTTCGAATAACCAATGGAATTTGCGAAAGTCATGCA
CATTATGAAGGTAGAATTAACAAATTTGCCGCACTTATGGCAGCAATGTGGATAAATTTT
CCTCGTGGTGAAGCAGAAAATCCTTTCAACATACGCAATGGTTGGGAATATCTTGCAAAA
GTTTTAAATAATCCACCTGATACAAATTATCTTCATATCATTGGAAAAATTTTGGAAATT
GCAGGATTCATGTTGCATAAAGTGTATGGAAAGCAATTCATAAAAATGATGATTTTAATT
AGGGATAAATATATCCCATCTGTTCATTCATCTATTGATGAAGAGAATATTGCTTCGTTT
AATCGATTACGTGAAACAGTTACATCATTTTTCAATAATAAAGCTTTTACTCCTCCTGAA
GGATTTTTAACTTTTGGTTATTGGTAA
>g8203.t1 Gene=g8203 Length=628
MESENVIEYGESNNLNKSMIRAAEISSLICSLTLGPNANFEDNEINNKIVNGNESDPKNT
ILKKCSNNKMPQITTSNFEKSSKMDINDVKNLQQQLLKENTNKKIEIEVRKKLEHKRLEE
IEKHKQIRSNLEALKAEAERRHKLRMIEFDRQVQRELELERQRELAYQEQRKQLAANTRK
IQEEKEKLLREQIRKWIEISTKQEDVFTKMLSICNSEFKLLDTYKKELKSLQTLRDANIN
SLEILKSVCVKLDALSQKFQKDLTEFATAKREAEEKEREKQLLIAAAQKQQQEKEIVTPI
QIAAVTPQSHDQIDQIPSADTNLLLSESFKQFNDYMQLLAMKKAQTKRLDDTPELQQIRF
ALKSAVNFPINLLNEKNKTTLIDGYQKLFNLLSGQRVNTAKGSVSILDHNEASDWCKLRI
AEKLIDRCDKESNIVFYSAAIAISLWTKFPDFGEIFKGLLYKECPFLMPHKPTKQSTQTN
EEFLSTWGFRITNGICESHAHYEGRINKFAALMAAMWINFPRGEAENPFNIRNGWEYLAK
VLNNPPDTNYLHIIGKILEIAGFMLHKVYGKQFIKMMILIRDKYIPSVHSSIDEENIASF
NRLRETVTSFFNNKAFTPPEGFLTFGYW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8203.t1 | Coils | Coil | Coil | 117 | 141 | - |
| 4 | g8203.t1 | Coils | Coil | Coil | 167 | 191 | - |
| 5 | g8203.t1 | Coils | Coil | Coil | 266 | 293 | - |
| 3 | g8203.t1 | Gene3D | G3DSA:1.25.40.510 | - | 325 | 618 | 1.7E-35 |
| 2 | g8203.t1 | PANTHER | PTHR12960 | GLE-1-RELATED | 261 | 624 | 4.5E-51 |
| 1 | g8203.t1 | Pfam | PF07817 | GLE1-like protein | 345 | 580 | 3.9E-39 |
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:0016973 | poly(A)+ mRNA export from nucleus | BP |
| GO:0005643 | nuclear pore | CC |
KEGG
Orthology
- This transcript has been annotated with K18723 (nucleoporin GLE1)
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.
