General information for g11537.t5
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.t5 | TSS | g11537.t5 | 16922582 | 16922582 |
| chr_1 | g11537 | g11537.t5 | isoform | g11537.t5 | 16922678 | 16925334 |
| chr_1 | g11537 | g11537.t5 | exon | g11537.t5.exon1 | 16922678 | 16923238 |
| chr_1 | g11537 | g11537.t5 | cds | g11537.t5.CDS1 | 16923224 | 16923238 |
| chr_1 | g11537 | g11537.t5 | exon | g11537.t5.exon2 | 16923300 | 16924164 |
| chr_1 | g11537 | g11537.t5 | cds | g11537.t5.CDS2 | 16923300 | 16924164 |
| chr_1 | g11537 | g11537.t5 | exon | g11537.t5.exon3 | 16924246 | 16924406 |
| chr_1 | g11537 | g11537.t5 | cds | g11537.t5.CDS3 | 16924246 | 16924406 |
| chr_1 | g11537 | g11537.t5 | exon | g11537.t5.exon4 | 16925228 | 16925334 |
| chr_1 | g11537 | g11537.t5 | cds | g11537.t5.CDS4 | 16925228 | 16925230 |
| chr_1 | g11537 | g11537.t5 | TTS | g11537.t5 | NA | NA |
Sequences
>g11537.t5 Gene=g11537 Length=1694
ATGGCTGAGGAAATTGTAAGTAGATAAGGATAAAAATGACTAAAGCTCTATAACATTAAT
ACACGTTATTTTTATAAAAATGCCTTCACAAAATTTATATTTTTATTTTAAACCTAATTG
TTTACTCATTATTATTATTGTAAGTTAAACTTAGGTTTTTACTTAAATTACAATGTAGGA
GCACTTAGCAAGATATAAAAAATATTATTAAACTCTTAAAAAATCCTTTCCAACCTATCT
TTTGTTCATTCGATAAAAAGTGCTTAGTAATTGTATTGAATTTGCCAATTGATCTTTTTA
AAATATTTATAATTTAACATTTTTCTACAGATTATTCGCATTCAGACTCCAGATGGTATC
AAAAGAATAACGATCGCAAAAAATGCGACATTGAAAGAACTTTACGAAGTGGTATATAAG
ACTTTAAATCTGATTGATTACGGATTTTCTTTGTTTTCGGATCGCAGTTGTTCCAAAGAA
ATCCGTTCTACTCGTTCTTCAACGCTCTCATCATTTAATCATGGTGACATTTTGTATTAC
AAACACATGGCAAGCACATCTTCACAATCCGATCAGTCATCATCATCATCAAATATTACG
CAAACTCCTTCAGCAACAAAGAAAAATCTTCTTGTAGAAGATGCCGTAGATGTTGAACTA
TCTAAACTAGATGGTCGTATTGAACGTAAAAAGGATGAAAAATTGTGCAGACATGCTAGT
GGAAATCGATGCGTTCATTGCTCTTCACTCGAACCATATGATGAGAATTATTTGAAGGAA
CAGAAAATAAAACATCTCTCATTTCATTCATATTTAAGAAAAATGACTTCTGGCGTCGAT
CGTGGAAAATTTGTGGCGTTTGATGATATTAACTGCAAAATTAAATCAGGTTGTCGTGAG
CATCCTCCATGGCCTAAAGGCATTTGTTCTAAATGTCAACCTTCAGCAATTACCTTAAAT
CGTCAAATTTATCGTCATGTTGATAACGTCATGTTTGAAAATAATGAAATTGTCGATGAA
TTTATTAATTATTGGCGCACTACAAGTCATCAGCGTCTTGGTTTTCTTTATGGATGCTAT
GAAAAAACTAACGATGTTCCGTTGGGTATTCGAGCAAGAGTCTGTGCTATCTATGAACCG
CCTCAAGAAAGTACTAAGACCAGCATAAAGTTACTTCATGATCCAAATGATGCAGAAGTT
GAAGAGATGGCAGAACAACTTGGTCTCAAACGTATTGGCTGGATATTTACTGATTTGGAA
GCGATAAATGACGGCAAAGTTAAGCATCTTCGTGGAATCGATACCTTCTTTTTAACTGCG
AAAGAATGTATACTTGCAGGACATTTTCAAAATTTGCATCCGAATCCTTGCAGTCAATCA
TCTAATGGATTTTTTGGATCTAAATTTGTTACAATTTGTGTAACTGGCGATAAAGAAAAT
CAAATTCATATGGAAGGTTATCAAGTTTCGAATCAATGTATGGCTCTTGTTCGTGACAAC
TGCTTGCTCCCAACTAAAGATGCACCAGAATTGGGCTATGTTCGTGAATCTACAGATAAA
CAATATGTACCAGATGTCTTTTACAAGTGAAATGAATCCATCAAATGAAGCTTTGTCTCG
TCGTTTCAAAAAAGTTCCCAATTTCATTTTCACTAAAACCTAGTTTAAAATATGTTAACG
AATGGGAGAAAAAA
>g11537.t5 Gene=g11537 Length=347
MASTSSQSDQSSSSSNITQTPSATKKNLLVEDAVDVELSKLDGRIERKKDEKLCRHASGN
RCVHCSSLEPYDENYLKEQKIKHLSFHSYLRKMTSGVDRGKFVAFDDINCKIKSGCREHP
PWPKGICSKCQPSAITLNRQIYRHVDNVMFENNEIVDEFINYWRTTSHQRLGFLYGCYEK
TNDVPLGIRARVCAIYEPPQESTKTSIKLLHDPNDAEVEEMAEQLGLKRIGWIFTDLEAI
NDGKVKHLRGIDTFFLTAKECILAGHFQNLHPNPCSQSSNGFFGSKFVTICVTGDKENQI
HMEGYQVSNQCMALVRDNCLLPTKDAPELGYVRESTDKQYVPDVFYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11537.t5 | CDD | cd08061 | MPN_NPL4 | 136 | 347 | 6.72322E-102 |
| 5 | g11537.t5 | Gene3D | G3DSA:3.40.140.10 | Cytidine Deaminase | 130 | 336 | 6.9E-7 |
| 4 | g11537.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 24 | - |
| 3 | g11537.t5 | PANTHER | PTHR12710 | NUCLEAR PROTEIN LOCALIZATION 4 | 7 | 338 | 5.2E-143 |
| 1 | g11537.t5 | Pfam | PF05020 | NPL4 family, putative zinc binding region | 31 | 166 | 2.6E-60 |
| 2 | g11537.t5 | Pfam | PF05021 | NPL4 family | 170 | 347 | 2.7E-75 |
| 6 | g11537.t5 | ProSiteProfiles | PS50249 | MPN domain profile. | 148 | 283 | 16.565 |
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 transcript has been annotated with K14015 (nuclear protein localization protein 4)
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.
