General information for g5063.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear pore complex protein Nup75.
Parent gene
- The parent gene g5063 is located on chr_2: 6719889..6721223 (- 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_2 | g5063 | g5063.t1 | TTS | g5063.t1 | 6719836 | 6719836 |
| chr_2 | g5063 | g5063.t1 | isoform | g5063.t1 | 6719889 | 6721223 |
| chr_2 | g5063 | g5063.t1 | exon | g5063.t1.exon1 | 6719889 | 6721223 |
| chr_2 | g5063 | g5063.t1 | cds | g5063.t1.CDS1 | 6719889 | 6721223 |
| chr_2 | g5063 | g5063.t1 | TSS | g5063.t1 | 6722140 | 6722140 |
Sequences
>g5063.t1 Gene=g5063 Length=1335
ATGACTTTTCAACTTGCTGAAAAAGAATTACAAACAATGCCAATATTCAATTCAAATGGA
GGCCTTTCAATTCAAAAGTTTCGTTCTCAATGGTCAATTTGGTCAAGTGCTCTTGAATCA
AAATTAGAATCTGGGCTTTTCTCTTCTGAGCCTGAAGTTGAGAATATTATGAAGCTAATT
ACTGGTGATAAAGAAGCATGGATGCAAGTTTGCAAAGAATCAAACTGTTGGTATGAATAT
TTTGCTGGATTTTTATTCTATACACAACCATCTGTACGCTACTTTGAGTTAGGAACATTT
GCTGATAATTGGCTTGGACAATGGTCAAGTACAAAAGGAATGAAAGAATATACCGGATTA
AAATCACTTGATCGGATGGTACTTGCAGTGCTGAAAAATGACATGGCAGAATTGATTTAT
TCAATTCAAGATATGGGCGATAATAAATGGTTTGTAGTTCATCTTGTTGATCTTCTTGTA
CATTGTGATCAATTGAGAATTAGTGAAGAATCTAATGGACCTTCAGTCGTAGCACTTCGT
GAAGGGTTGTTATTTGATTTTGGAACAATGTTGATGTCTCGTGGATCATTTTGGGAAATA
GGAATGGATTATTTGAAATTCTCATCCCCTGAAGGTTTAGGAGCTAGAGAAATGCTACTT
GCTCGTGTGCCAGTTAAAAATGATTTACAAGCAATGAAAGTGATTGAAGTTGCAAGACGC
TTGGGCATGACAATGGTTGAACAAGAAATTTGTCGAGTTATGGTTAAACGTTCAATATCA
CTTGAAAATTATGGAAATGCACTCGAGTGGGCTATCAGATCACGCGATAATATTTATATT
ACAAAAGTTGCCAACATTTTTCTCGATCATTACTGCTTGAAAGGAGAAATGCTTCATAAA
GATCTTCTTGCAAATATCGGAGCAAAAATGTTTATTGCACCAAGACTCTTGTTCCTTGTC
AAATATTTTGATTTTCATCAATTTTATCAAGCTCGCGCATTTTCACAAGCTGCTGAACTT
TTAATAAATCTACTCGATTCAAAAATTATTCCAGAATTTTTCTGGCCATCATTATTAGCC
GATACTGTTCCACTTCTTGAACATACTGAGCCAATAATTCCAACAAAAGAGACTTACATC
ATTATGCATCATCTAGAAAGTGATCTAATTCCATATTTAGCCAAATCTAAGGAAGAAAGA
AAAAAGAAGAACATTAAAGATAAAGAGTTGAATTTAATCAATGGATCACCTGATGACCTT
GTTCAGCTGCTTCGACTTGCTTGTGCAAGAAATTTATCCAGAGCAATGATAATTGAAAAC
ACTTTCATTCGATAA
>g5063.t1 Gene=g5063 Length=444
MTFQLAEKELQTMPIFNSNGGLSIQKFRSQWSIWSSALESKLESGLFSSEPEVENIMKLI
TGDKEAWMQVCKESNCWYEYFAGFLFYTQPSVRYFELGTFADNWLGQWSSTKGMKEYTGL
KSLDRMVLAVLKNDMAELIYSIQDMGDNKWFVVHLVDLLVHCDQLRISEESNGPSVVALR
EGLLFDFGTMLMSRGSFWEIGMDYLKFSSPEGLGAREMLLARVPVKNDLQAMKVIEVARR
LGMTMVEQEICRVMVKRSISLENYGNALEWAIRSRDNIYITKVANIFLDHYCLKGEMLHK
DLLANIGAKMFIAPRLLFLVKYFDFHQFYQARAFSQAAELLINLLDSKIIPEFFWPSLLA
DTVPLLEHTEPIIPTKETYIIMHHLESDLIPYLAKSKEERKKKNIKDKELNLINGSPDDL
VQLLRLACARNLSRAMIIENTFIR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g5063.t1 | PANTHER | PTHR13373 | FROUNT PROTEIN-RELATED | 3 | 439 | 0 |
| 1 | g5063.t1 | Pfam | PF07575 | Nup85 Nucleoporin | 4 | 386 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5063/g5063.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5063.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K14304 (nuclear pore complex protein Nup85)
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.
