General information for g11537.t3
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.t3 | TSS | g11537.t3 | 16922582 | 16922582 |
| chr_1 | g11537 | g11537.t3 | isoform | g11537.t3 | 16922678 | 16923841 |
| chr_1 | g11537 | g11537.t3 | exon | g11537.t3.exon1 | 16922678 | 16923238 |
| chr_1 | g11537 | g11537.t3 | cds | g11537.t3.CDS1 | 16923224 | 16923238 |
| chr_1 | g11537 | g11537.t3 | exon | g11537.t3.exon2 | 16923300 | 16923841 |
| chr_1 | g11537 | g11537.t3 | cds | g11537.t3.CDS2 | 16923300 | 16923839 |
| chr_1 | g11537 | g11537.t3 | TTS | g11537.t3 | NA | NA |
Sequences
>g11537.t3 Gene=g11537 Length=1103
ATGGCTGAGGAAATTGTAAGTAGATAAGGATAAAAATGACTAAAGCTCTATAACATTAAT
ACACGTTATTTTTATAAAAATGCCTTCACAAAATTTATATTTTTATTTTAAACCTAATTG
TTTACTCATTATTATTATTGTAAGTTAAACTTAGGTTTTTACTTAAATTACAATGTAGGA
GCACTTAGCAAGATATAAAAAATATTATTAAACTCTTAAAAAATCCTTTCCAACCTATCT
TTTGTTCATTCGATAAAAAGTGCTTAGTAATTGTATTGAATTTGCCAATTGATCTTTTTA
AAATATTTATAATTTAACATTTTTCTACAGATTATTCGCATTCAGACTCCAGATGGTATC
AAAAGAATAACGATCGCAAAAAATGCGACATTGAAAGAACTTTACGAAGTGGTATATAAG
ACTTTAAATCTGATTGATTACGGATTTTCTTTGTTTTCGGATCGCAGTTGTTCCAAAGAA
ATCCGTTCTACTCGTTCTTCAACGCTCTCATCATTTAATCATGGTGACATTTTGTATTAC
AAACACATGGCAAGCACATCTTCACAATCCGATCAGTCATCATCATCATCAAATATTACG
CAAACTCCTTCAGCAACAAAGAAAAATCTTCTTGTAGAAGATGCCGTAGATGTTGAACTA
TCTAAACTAGATGGTCGTATTGAACGTAAAAAGGATGAAAAATTGTGCAGACATGCTAGT
GGAAATCGATGCGTTCATTGCTCTTCACTCGAACCATATGATGAGAATTATTTGAAGGAA
CAGAAAATAAAACATCTCTCATTTCATTCATATTTAAGAAAAATGACTTCTGGCGTCGAT
CGTGGAAAATTTGTGGCGTTTGATGATATTAACTGCAAAATTAAATCAGGTTGTCGTGAG
CATCCTCCATGGCCTAAAGGCATTTGTTCTAAATGTCAACCTTCAGCAATTACCTTAAAT
CGTCAAATTTATCGTCATGTTGATAACGTCATGTTTGAAAATAATGAAATTGTCGATGAA
TTTATTAATTATTGGCGCACTACAAGTCATCAGCGTCTTGGTTTTCTTTATGGATGCTAT
GAAAAAACTAACGATGTTCCGTT
>g11537.t3 Gene=g11537 Length=185
MASTSSQSDQSSSSSNITQTPSATKKNLLVEDAVDVELSKLDGRIERKKDEKLCRHASGN
RCVHCSSLEPYDENYLKEQKIKHLSFHSYLRKMTSGVDRGKFVAFDDINCKIKSGCREHP
PWPKGICSKCQPSAITLNRQIYRHVDNVMFENNEIVDEFINYWRTTSHQRLGFLYGCYEK
TNDVP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g11537.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 24 | - |
| 2 | g11537.t3 | PANTHER | PTHR12710 | NUCLEAR PROTEIN LOCALIZATION 4 | 7 | 185 | 1.9E-69 |
| 1 | g11537.t3 | Pfam | PF05020 | NPL4 family, putative zinc binding region | 31 | 166 | 4.7E-61 |
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