General information for g11537.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear protein localization protein 4-like protein.
Parent gene
- The parent gene g11537 is located on chr_1: 16924417..16925334 (+ 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_1 | g11537 | g11537.t2 | TSS | g11537.t2 | 16922582 | 16922582 |
| chr_1 | g11537 | g11537.t2 | isoform | g11537.t2 | 16922678 | 16923841 |
| chr_1 | g11537 | g11537.t2 | exon | g11537.t2.exon1 | 16922678 | 16922692 |
| chr_1 | g11537 | g11537.t2 | cds | g11537.t2.CDS1 | 16922678 | 16922692 |
| chr_1 | g11537 | g11537.t2 | exon | g11537.t2.exon2 | 16923008 | 16923238 |
| chr_1 | g11537 | g11537.t2 | cds | g11537.t2.CDS2 | 16923008 | 16923238 |
| chr_1 | g11537 | g11537.t2 | exon | g11537.t2.exon3 | 16923300 | 16923841 |
| chr_1 | g11537 | g11537.t2 | cds | g11537.t2.CDS3 | 16923300 | 16923839 |
| chr_1 | g11537 | g11537.t2 | TTS | g11537.t2 | NA | NA |
Sequences
>g11537.t2 Gene=g11537 Length=788
ATGGCTGAGGAAATTATTATTCGCATTCAGACTCCAGATGGTATCAAAAGAATAACGATC
GCAAAAAATGCGACATTGAAAGAACTTTACGAAGTGGTATATAAGACTTTAAATCTGATT
GATTACGGATTTTCTTTGTTTTCGGATCGCAGTTGTTCCAAAGAAATCCGTTCTACTCGT
TCTTCAACGCTCTCATCATTTAATCATGGTGACATTTTGTATTACAAACACATGGCAAGC
ACATCTTCACAATCCGATCAGTCATCATCATCATCAAATATTACGCAAACTCCTTCAGCA
ACAAAGAAAAATCTTCTTGTAGAAGATGCCGTAGATGTTGAACTATCTAAACTAGATGGT
CGTATTGAACGTAAAAAGGATGAAAAATTGTGCAGACATGCTAGTGGAAATCGATGCGTT
CATTGCTCTTCACTCGAACCATATGATGAGAATTATTTGAAGGAACAGAAAATAAAACAT
CTCTCATTTCATTCATATTTAAGAAAAATGACTTCTGGCGTCGATCGTGGAAAATTTGTG
GCGTTTGATGATATTAACTGCAAAATTAAATCAGGTTGTCGTGAGCATCCTCCATGGCCT
AAAGGCATTTGTTCTAAATGTCAACCTTCAGCAATTACCTTAAATCGTCAAATTTATCGT
CATGTTGATAACGTCATGTTTGAAAATAATGAAATTGTCGATGAATTTATTAATTATTGG
CGCACTACAAGTCATCAGCGTCTTGGTTTTCTTTATGGATGCTATGAAAAAACTAACGAT
GTTCCGTT
>g11537.t2 Gene=g11537 Length=262
MAEEIIIRIQTPDGIKRITIAKNATLKELYEVVYKTLNLIDYGFSLFSDRSCSKEIRSTR
SSTLSSFNHGDILYYKHMASTSSQSDQSSSSSNITQTPSATKKNLLVEDAVDVELSKLDG
RIERKKDEKLCRHASGNRCVHCSSLEPYDENYLKEQKIKHLSFHSYLRKMTSGVDRGKFV
AFDDINCKIKSGCREHPPWPKGICSKCQPSAITLNRQIYRHVDNVMFENNEIVDEFINYW
RTTSHQRLGFLYGCYEKTNDVP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g11537.t2 | Gene3D | G3DSA:3.10.20.90 | - | 1 | 76 | 0 |
| 3 | g11537.t2 | PANTHER | PTHR12710 | NUCLEAR PROTEIN LOCALIZATION 4 | 6 | 262 | 0 |
| 2 | g11537.t2 | Pfam | PF11543 | Nuclear pore localisation protein NPL4 | 1 | 78 | 0 |
| 1 | g11537.t2 | Pfam | PF05020 | NPL4 family, putative zinc binding region | 108 | 243 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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