General information for g2129.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear pore complex protein Nup214.
Parent gene
- The parent gene g2129 is located on chr_3: 15361002..15361992 (- 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 | g2129 | g2129.t16 | isoform | g2129.t16 | 15361002 | 15361992 |
| chr_3 | g2129 | g2129.t16 | exon | g2129.t16.exon1 | 15361002 | 15361504 |
| chr_3 | g2129 | g2129.t16 | cds | g2129.t16.CDS1 | 15361004 | 15361504 |
| chr_3 | g2129 | g2129.t16 | exon | g2129.t16.exon2 | 15361562 | 15361891 |
| chr_3 | g2129 | g2129.t16 | cds | g2129.t16.CDS2 | 15361562 | 15361891 |
| chr_3 | g2129 | g2129.t16 | exon | g2129.t16.exon3 | 15361957 | 15361992 |
| chr_3 | g2129 | g2129.t16 | cds | g2129.t16.CDS3 | 15361957 | 15361992 |
| chr_3 | g2129 | g2129.t16 | TSS | g2129.t16 | 15362123 | 15362123 |
| chr_3 | g2129 | g2129.t16 | TTS | g2129.t16 | NA | NA |
Sequences
>g2129.t16 Gene=g2129 Length=869
ATGGCGCTCGCTGGACCGATTGGAAACGATAATTTGAACATCAGTTTTAGATTGCATAGC
AAAAATCAAGTATTTGATGGATCTTCTAATATACTTAATAATGCAAGAGTAAATTTAGTG
ACTTCAGCGAGCAGTTTTGGACTCGTTTTTGTTGGCTCTTCATTGCCTGAGATAATTGTT
TTGTGCATGAAAGATTTAGAATCGTCAAATGCCATTGAATCAAATGCGCCGGTACGAAAA
ATTCCTATGCCATCATCGGTAACTCAACTAGCATGTAATTGTGATGGATCTATTTTAGCA
GTGGATGTGAAAATCAACGGTATTTCTCACATTCAACTATATTCAGTGGCATCTTTTCTT
GCTCCTAGTGTGCAAAAAATACGAGAATTTCGTGTTTCGACAGACAATTCGAGTTCATCT
CAATTATGCTGGAATCCAGTTATTAATTCAGCACTTGCTGTTTGTTCTGAAAATGGAAGT
CTTGGATTATATGTATTAAAAGATCAAGGAGTTGAATTTCATTCAATCGATCCTTCTTTG
AAAGCAAAATGTTGCTGTTGGTCGCCAAAAGGTAAACAAATTGTTGCTGGTTTTGCTGAT
GGAAAACTTATGCAATTCAATATGGAAATGAAACCAGCAAGAACAATTGAATGTCCCCAA
GGAATAATAAATGGAAGTTTTGACACAATCGCCATTCAATGGTTTTCTACTTATCAGTTC
GCTGTCGCGTTTTTAAAACATGCAGAGGAATCAAGACCAGGTAATAAATTTTTTCTTCCG
ATTCTTATCAATATTAAATTTTTATTTATAAAACTTATAAAGATAAGTAAAAATCAAACA
GCCCTTGAATCAAAGTTTTACTATTTATT
>g2129.t16 Gene=g2129 Length=289
MALAGPIGNDNLNISFRLHSKNQVFDGSSNILNNARVNLVTSASSFGLVFVGSSLPEIIV
LCMKDLESSNAIESNAPVRKIPMPSSVTQLACNCDGSILAVDVKINGISHIQLYSVASFL
APSVQKIREFRVSTDNSSSSQLCWNPVINSALAVCSENGSLGLYVLKDQGVEFHSIDPSL
KAKCCCWSPKGKQIVAGFADGKLMQFNMEMKPARTIECPQGIINGSFDTIAIQWFSTYQF
AVAFLKHAEESRPGNKFFLPILINIKFLFIKLIKISKNQTALESKFYYL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g2129.t16 | Gene3D | G3DSA:2.130.10.10 | - | 20 | 244 | 0.00 |
| 2 | g2129.t16 | SMART | SM00320 | WD40_4 | 123 | 165 | 46.00 |
| 3 | g2129.t16 | SMART | SM00320 | WD40_4 | 169 | 207 | 0.49 |
| 1 | g2129.t16 | SUPERFAMILY | SSF117289 | Nucleoporin domain | 14 | 247 | 0.00 |
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: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. There were no conditions that were differentially expressed