General information for g7892.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g7892 is located on chr_2: 26775280..26776443 (+ 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 | g7892 | g7892.t1 | TSS | g7892.t1 | 26775146 | 26775146 |
| chr_2 | g7892 | g7892.t1 | isoform | g7892.t1 | 26775204 | 26776443 |
| chr_2 | g7892 | g7892.t1 | exon | g7892.t1.exon1 | 26775204 | 26775280 |
| chr_2 | g7892 | g7892.t1 | cds | g7892.t1.CDS1 | 26775204 | 26775280 |
| chr_2 | g7892 | g7892.t1 | exon | g7892.t1.exon2 | 26775339 | 26776443 |
| chr_2 | g7892 | g7892.t1 | cds | g7892.t1.CDS2 | 26775339 | 26776443 |
| chr_2 | g7892 | g7892.t1 | TTS | g7892.t1 | 26776493 | 26776493 |
Sequences
>g7892.t1 Gene=g7892 Length=1182
ATGCCAGTTTGTAATTTTTATATTAATGGTAATTGCAGATTCGGATCAAAGTGTAATAAT
GATCATATTGATTTGAAAGGACTATTGAAGAGTGAAGTTGATTCAGTAATTAATGGCAAA
CAATGGGTTCTTTCTTGTTTTGGACCGTTCAAGGAAAGTTGTGTTGTACCAAATTTTATA
ACTGATCAATCTTTTGAAGAAATTAGAATGGGATATATTGAAAACTCAAAGAATGGAAAT
TTGCAACAATATATCAATTTGTTAGCTGCAGAATATAATTCAGCGATTCAAAAGCTAAAT
GAACTTAAGATGGCATCTCCTGACACAATACAGTTGATTGCATCAATTTACAATAATTCA
ATTGATCAGAAGACACCAATTGTTTCAAAAGCATCAATCTCTTCTCAACCACAAAATCCT
TTTCAATCTTCTAATATTTTTGGTGGAAGTAATCACCAAACAAACACAGGCATGAGTACA
TCAAGTATATTTGGAACTTCTTCAAATATAAGCAATCCATTTCAACAGCAAGCACAAGGA
ACATCTATTTTTGGTTCAGCAAGTAGTAATATGCAAACACAGCAGCAAGTTGCTCAAGCT
TCTCCATTTTCTTTCGTAAATGCATCCAGTTCTAACATAACTTCTGCTGTTCAGCAACCG
CAAAGTTCAATCTTTACACAAAATATTTATGGACAACCGCAGCAACAGCATAATTCAATT
TTTGGATCAATGCCAACTCCACAGTCACAACCAATAGCTAATATTCAACCACAAAATTCT
CAATCAATATTTGGTCAATCTTTCAATCAACCTTTACAAACTCCTTCAATTTTTGCTTCT
CAAACGATTCAAACTCCATCAAATCCTTTTCAGCAAGTGCAACAACAAAGCACGACAAAT
ATTTTTGGTGCACAAAATATTCAGCCACAAGCGTCTCAAACACCATTACAACCGAGTAAT
AACATTTTCCAAATTCAACAGACACAACAACAAGTACAAACACAACCATTTGGAGATAAT
CCATTTCAACAGTCAAATGTTCCAACAATTCAGATTAATGACGAGAAATTCTATTCACAA
CCTGGTGAGTTATCAGCAGAAGAAAATGAACAATTCCAAGCAGAGAGTTTTACGTTTGGA
AAAATTCCTAGAAATCCGCCTTCAAAAAATTTATGTACCTAA
>g7892.t1 Gene=g7892 Length=393
MPVCNFYINGNCRFGSKCNNDHIDLKGLLKSEVDSVINGKQWVLSCFGPFKESCVVPNFI
TDQSFEEIRMGYIENSKNGNLQQYINLLAAEYNSAIQKLNELKMASPDTIQLIASIYNNS
IDQKTPIVSKASISSQPQNPFQSSNIFGGSNHQTNTGMSTSSIFGTSSNISNPFQQQAQG
TSIFGSASSNMQTQQQVAQASPFSFVNASSSNITSAVQQPQSSIFTQNIYGQPQQQHNSI
FGSMPTPQSQPIANIQPQNSQSIFGQSFNQPLQTPSIFASQTIQTPSNPFQQVQQQSTTN
IFGAQNIQPQASQTPLQPSNNIFQIQQTQQQVQTQPFGDNPFQQSNVPTIQINDEKFYSQ
PGELSAEENEQFQAESFTFGKIPRNPPSKNLCT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g7892.t1 | Coils | Coil | Coil | 85 | 105 | - |
| 4 | g7892.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 362 | 393 | - |
| 5 | g7892.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 362 | 378 | - |
| 1 | g7892.t1 | PANTHER | PTHR46527 | NUCLEOPORIN-LIKE PROTEIN 2 | 1 | 26 | 5.8E-37 |
| 2 | g7892.t1 | PANTHER | PTHR46527 | NUCLEOPORIN-LIKE PROTEIN 2 | 30 | 265 | 5.8E-37 |
| 3 | g7892.t1 | PANTHER | PTHR46527 | NUCLEOPORIN-LIKE PROTEIN 2 | 217 | 392 | 5.8E-37 |
| 7 | g7892.t1 | ProSiteProfiles | PS50103 | Zinc finger C3H1-type profile. | 1 | 25 | 13.15 |
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:0046872 | metal ion binding | MF |
KEGG
Orthology
- This transcript has been annotated with K14321 (nucleoporin-like protein 2)
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.
