General information for g16905.t4
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 g16905 is located on chr_4: 11676563..11679131 (+ 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_4 | g16905 | g16905.t4 | TSS | g16905.t4 | 11676381 | 11676381 |
| chr_4 | g16905 | g16905.t4 | isoform | g16905.t4 | 11676563 | 11678979 |
| chr_4 | g16905 | g16905.t4 | exon | g16905.t4.exon1 | 11676563 | 11676616 |
| chr_4 | g16905 | g16905.t4 | cds | g16905.t4.CDS1 | 11676563 | 11676616 |
| chr_4 | g16905 | g16905.t4 | exon | g16905.t4.exon2 | 11676675 | 11676744 |
| chr_4 | g16905 | g16905.t4 | cds | g16905.t4.CDS2 | 11676675 | 11676744 |
| chr_4 | g16905 | g16905.t4 | exon | g16905.t4.exon3 | 11676852 | 11677066 |
| chr_4 | g16905 | g16905.t4 | cds | g16905.t4.CDS3 | 11676852 | 11677066 |
| chr_4 | g16905 | g16905.t4 | exon | g16905.t4.exon4 | 11677119 | 11677400 |
| chr_4 | g16905 | g16905.t4 | cds | g16905.t4.CDS4 | 11677119 | 11677400 |
| chr_4 | g16905 | g16905.t4 | exon | g16905.t4.exon5 | 11678399 | 11678979 |
| chr_4 | g16905 | g16905.t4 | cds | g16905.t4.CDS5 | 11678399 | 11678977 |
| chr_4 | g16905 | g16905.t4 | TTS | g16905.t4 | 11679589 | 11679589 |
Sequences
>g16905.t4 Gene=g16905 Length=1202
ATGAAAAATACACCAGAAAATAATGAAGTTATCAAATGTATATTTTTATGCGAGTTTCAT
GCAACTGCTGGAACGAAAATTGTTGATCAATCACCAAAGAATTTTATATCAAAAGAAATG
TTTGATAAGGCCTCAAATTATGTGATTCCAAAAGTTCAACTTGCTTATTGTTTCATTAGC
ATCTCACTAAATGATCTCAAAATTCTTGGTTATCCAATCAGAATTGACAACAAATCATAT
GTGAGAAATGCATTTTATTTCAATTTGTGCTTTGTATTTGACAATGGAACAAGAACATTT
TGTTATGAGAGCATTATCAAAAAATGTACTGAATATTTACTCTCATTAGAACTTTCTTCC
AAATTCTTATCAAAACTTGATGAAACAAAATTAAAACGACTCGAATTGATGCTTGATAAA
ATACGTACTGATATCAATAATTATGGCAATTGCATGCTACGAGATGAAAACAATATTTTA
CCACTCTGTGTAGTTCCATATTATGAAGACAAATTAATTGAAATTAATGAAATGGGAGAA
TTTTCTCATAAAGCACCAGTTTTACTTGATTGTTTTTTTGAAAATTTTACTTTATCATCA
TGGGATTTAACTACTAAAATGATCGTGCCTTTTATAAATGGTTTCCGACACATTGATCGC
ATAGCACAACTTGCTGATGTGTCAGTGACAATTGTTTTGCAGTGTGTCAAGCATTTGGTA
TTGTTAGGCGTTGCAGTGCTTGTCCCAGCATTTCAATATTCAAATATTTATCGACCAACA
CCAAAATTGAAACTCCTTGCCAAATCACCTGAAGTACAAGAACGTGCCATAGCAAAATGT
TCAAAATCAGAATTAAAGAAAGCAAAAGTTCGTGATATTTTGATGTTATTTGCTTCAATG
ACCCATGGAGCAACTCTTGGGGAATTGTGTGTTCGTTTTAATCCAGCAAAAAAGAACATT
GATGAAAGGAACACAGTTTTGTTTGGATTAGTCGAACAATTGATAAGACCAATTTTTAAA
TATCCAGTTGTGGTAAATAAAAATTTATTTGTTGGTTATGAAGATATGAATGGAAATCAT
CAGCAACAACATAGTTTAATGGATATGAATTCATGTGGCATTCCAATATCAAATGCTTCT
AAAAGATCAAGCTTTGATAACGTTAAAGTTGCAAAAAATTCTTTTACTGGTTTAAAAACT
TT
>g16905.t4 Gene=g16905 Length=400
MKNTPENNEVIKCIFLCEFHATAGTKIVDQSPKNFISKEMFDKASNYVIPKVQLAYCFIS
ISLNDLKILGYPIRIDNKSYVRNAFYFNLCFVFDNGTRTFCYESIIKKCTEYLLSLELSS
KFLSKLDETKLKRLELMLDKIRTDINNYGNCMLRDENNILPLCVVPYYEDKLIEINEMGE
FSHKAPVLLDCFFENFTLSSWDLTTKMIVPFINGFRHIDRIAQLADVSVTIVLQCVKHLV
LLGVAVLVPAFQYSNIYRPTPKLKLLAKSPEVQERAIAKCSKSELKKAKVRDILMLFASM
THGATLGELCVRFNPAKKNIDERNTVLFGLVEQLIRPIFKYPVVVNKNLFVGYEDMNGNH
QQQHSLMDMNSCGIPISNASKRSSFDNVKVAKNSFTGLKT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g16905.t4 | PANTHER | PTHR12991 | NITROGEN PERMEASE REGULATOR 2/TUMOR SUPPRESSOR CANDIDATE 4 | 8 | 359 | 0 |
| 1 | g16905.t4 | Pfam | PF06218 | Nitrogen permease regulator 2 | 11 | 274 | 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 transcript has been annotated with K20405 (nitrogen permease regulator 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.
