General information for g433.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Nucleoporin Nup43.
Parent gene
- The parent gene g433 is located on chr_3: 3341868..3355482 (+ 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_3 | g433 | g433.t1 | TSS | g433.t1 | 3340693 | 3340693 |
| chr_3 | g433 | g433.t1 | isoform | g433.t1 | 3340771 | 3341868 |
| chr_3 | g433 | g433.t1 | exon | g433.t1.exon1 | 3340771 | 3341868 |
| chr_3 | g433 | g433.t1 | cds | g433.t1.CDS1 | 3340771 | 3341868 |
| chr_3 | g433 | g433.t1 | TTS | g433.t1 | 3341934 | 3341934 |
Sequences
>g433.t1 Gene=g433 Length=1098
ATGAATGAGAATTTGACTAAAATAAATAGTTCTTTTGTATCGGAGCGCATCAATAAAATA
AGATTCGTTGAAGAAAGTCAAGCACAATTGGAAGCATCTAATTTTATTTCGGGATCATCT
GAAATTAAAAACAACGTGAAATTTTGGAAATTAATAAAAAATGAATTTGCTGATGAAATT
GAGAATGAATTTATTCCTAAGGCAGTATCTAAATTGACAATTGAAGGAGAAGTAACTGGA
TTAGAAAAGATAGATCGCTTTAATTTTGCAATATCATCTGGAAGTTCAATGACAATTGTT
TCGATTAATCCTGGTAAAAATGAGATGAACAAATTAAGAGAAAGTGCTAGTTTCAAAAAT
CTACACAAATTCAAGACTGGAGATTCAGCCTTATGCATGGGAGTTTCAGTTTTCGACGAA
AATATAAGTACTATAGGTGAAGATGGAAAAATAAATGTCATATCAGCCAATAATCAGAAA
GTCATTACAACAATTGATGATACTGACTCAGTAACTCAAACTGCCATTCGATTTATTAAT
TACAAAGAACTAATCACAGGAAATCGACTGGGAATAATGAAATCTTTTGATTTACGCTCA
GGAGATAAAACTCCTACAGCAACCTTTGCAATTTCATGCGAAGATGAAAAGAAATGCAAT
GCAGTCACAAGTCTCACACATCATCCAACTCAACAGCACATTATTTTAGCTGGATCTGAA
GAAGGAGCGATTACAGTTTACGATCTTCGTCAACCATCATTTCCATCTTCTTATCTTTGT
GCTCACGATTCTGCAATTACTGAATTAATGTTTCATCCGACTCAACCTGATAAATTATTT
TCTGCTTCAGCAAATGGTGAATTATGGAAATGGACACAAAATATGATGCAAACTGTCTCA
CATGATTATGAGAATAGAAATTCTGCAGACACTATTAACTCATGGCTAAATGGAGAAAGA
GCAAAAAATAAAATTTCAATCACAACTGTATTAGGTGGTCTTCGTAAATCAATCACTTCA
ATTGATTGTTCAAAGCAGTCACGCATTGTGTGTTCATGCAATAATGAAGCAGTTTATATC
GTTGATAATTTGTTTTAA
>g433.t1 Gene=g433 Length=365
MNENLTKINSSFVSERINKIRFVEESQAQLEASNFISGSSEIKNNVKFWKLIKNEFADEI
ENEFIPKAVSKLTIEGEVTGLEKIDRFNFAISSGSSMTIVSINPGKNEMNKLRESASFKN
LHKFKTGDSALCMGVSVFDENISTIGEDGKINVISANNQKVITTIDDTDSVTQTAIRFIN
YKELITGNRLGIMKSFDLRSGDKTPTATFAISCEDEKKCNAVTSLTHHPTQQHIILAGSE
EGAITVYDLRQPSFPSSYLCAHDSAITELMFHPTQPDKLFSASANGELWKWTQNMMQTVS
HDYENRNSADTINSWLNGERAKNKISITTVLGGLRKSITSIDCSKQSRIVCSCNNEAVYI
VDNLF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g433.t1 | Gene3D | G3DSA:2.130.10.10 | - | 8 | 365 | 0.000 |
| 1 | g433.t1 | PANTHER | PTHR22652 | NUCLEOPORIN NUP43 | 7 | 363 | 0.000 |
| 8 | g433.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 215 | 301 | 10.417 |
| 4 | g433.t1 | SMART | SM00320 | WD40_4 | 117 | 155 | 83.000 |
| 6 | g433.t1 | SMART | SM00320 | WD40_4 | 212 | 248 | 6.800 |
| 3 | g433.t1 | SMART | SM00320 | WD40_4 | 252 | 292 | 0.810 |
| 5 | g433.t1 | SMART | SM00320 | WD40_4 | 324 | 362 | 17.000 |
| 2 | g433.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 118 | 362 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K14305 (nuclear pore complex protein Nup43)
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.
