General information for g12441.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as GATOR complex protein NPRL2.
Parent gene
- The parent gene g12441 is located on chr_1: 23668116..23669974 (- 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 | g12441 | g12441.t3 | TTS | g12441.t3 | 23667337 | 23667337 |
| chr_1 | g12441 | g12441.t3 | isoform | g12441.t3 | 23668116 | 23669974 |
| chr_1 | g12441 | g12441.t3 | exon | g12441.t3.exon1 | 23668116 | 23668406 |
| chr_1 | g12441 | g12441.t3 | cds | g12441.t3.CDS1 | 23668116 | 23668406 |
| chr_1 | g12441 | g12441.t3 | exon | g12441.t3.exon2 | 23668470 | 23669279 |
| chr_1 | g12441 | g12441.t3 | cds | g12441.t3.CDS2 | 23668470 | 23668988 |
| chr_1 | g12441 | g12441.t3 | exon | g12441.t3.exon3 | 23669872 | 23669974 |
| chr_1 | g12441 | g12441.t3 | TSS | g12441.t3 | 23670080 | 23670080 |
Sequences
>g12441.t3 Gene=g12441 Length=1204
ATGCTAACACAAGAGAACAATTGTAGCAATAGTTATAAGCTGGAAAATATAGGAGCAAAT
ATAGGAAAAGAAGGAATAATTCGATGCATATTTTTGAGCGTATGAGTTTCATGCAACAGC
TGGAAGTAAAATTACATGTCAAACACCAATTAATTTCATTTCTAAACATGCATTTGATTT
AATAAATGCTTATATTCTGCCTAAGCGAGAACTTGAGAGACAAGTGCTAACAGTAAATAC
GCTTAATATAAAAATTGTTGGCTATCCAGTGAAAATACAGTGTGAAAAATATGCACGAAA
TGCATTCTATTTTAATTTGTGCTTCGTTTGTGATCATTACTGTAGAAGTGTACAATATGA
GCCGATTGTAAAGAAATTATCAGAATTTCTTATTATGATGGAAATGGAAGTCAACTTTTT
AAGCAATGAAGATTATCGACCAAGAATTCAACAAATGCTTAATAAAATAATTACTGATCT
CAATGAAACGCGTGTGTGTACGATTACAGAAGAAGAAACGACAGTTTTCTTAAAAATTGT
AAAAATAGCTGAGGATCCACCCGAGGTGACTGACTACGAAGTGCCAATGTTGAAACAAGA
ATTTGAAAATATGTCACTTGATCAATGGGATCTCACTACACAACAAGTTTTGCCATTTAT
TAATAGTGTCTATCATGTTGCAAAAATTTCAGCACTGTCTGATGTTGAAAATGCTTTAGT
AAAAGCTTGCATTCAAAATCTCTGCTATTATGATGTTGTTGAGCTTGTCCCATTATTCAA
ATATTCAAATGTTTACATGTGTACAAGAAATTTACAAAAATTGGCGCGAAATCAAAATTT
TGCCCAGGAATGTCTCAAATATGTCGCAATGAATGAAGATGAGTCGCTTCCTACACTTTA
TAGTGTTTTTCAACTGTATTCACAAATGACACATGGAGTTAATTTGAAAACACTTTGCAT
ACGGCTATCGCCAAGAAACAATAACATAAATGAACGAAAACTTGTTAGTTTTGGACTCAA
GCATAATCTCATACGATTAATTAATAAATATCCAATTTTTACTGGCTCAATTCCAAATGT
ACGACAAAAGCTTTATAATGGTCTTAATCATTTTGACGAAATTTGCTGTTCCACTGGACT
CTCGACGCAAAAGCTCGAAGAACTGATTGACTCGGACACAAACGTGACTGTTCTTATGAA
GTAA
>g12441.t3 Gene=g12441 Length=269
MMEMEVNFLSNEDYRPRIQQMLNKIITDLNETRVCTITEEETTVFLKIVKIAEDPPEVTD
YEVPMLKQEFENMSLDQWDLTTQQVLPFINSVYHVAKISALSDVENALVKACIQNLCYYD
VVELVPLFKYSNVYMCTRNLQKLARNQNFAQECLKYVAMNEDESLPTLYSVFQLYSQMTH
GVNLKTLCIRLSPRNNNINERKLVSFGLKHNLIRLINKYPIFTGSIPNVRQKLYNGLNHF
DEICCSTGLSTQKLEELIDSDTNVTVLMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g12441.t3 | PANTHER | PTHR12991 | NITROGEN PERMEASE REGULATOR 2/TUMOR SUPPRESSOR CANDIDATE 4 | 2 | 221 | 0 |
| 2 | g12441.t3 | PANTHER | PTHR12991 | NITROGEN PERMEASE REGULATOR 2/TUMOR SUPPRESSOR CANDIDATE 4 | 232 | 268 | 0 |
| 1 | g12441.t3 | Pfam | PF06218 | Nitrogen permease regulator 2 | 16 | 164 | 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.
