General information for g2760.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear pore complex protein Nup133.
Parent gene
- The parent gene g2760 is located on chr_3: 20054739..20055280 (+ 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 | g2760 | g2760.t1 | TSS | g2760.t1 | 20051505 | 20051505 |
| chr_3 | g2760 | g2760.t1 | isoform | g2760.t1 | 20051593 | 20055280 |
| chr_3 | g2760 | g2760.t1 | exon | g2760.t1.exon1 | 20051593 | 20051705 |
| chr_3 | g2760 | g2760.t1 | cds | g2760.t1.CDS1 | 20051593 | 20051705 |
| chr_3 | g2760 | g2760.t1 | exon | g2760.t1.exon2 | 20051762 | 20052753 |
| chr_3 | g2760 | g2760.t1 | cds | g2760.t1.CDS2 | 20051762 | 20052753 |
| chr_3 | g2760 | g2760.t1 | exon | g2760.t1.exon3 | 20052813 | 20054683 |
| chr_3 | g2760 | g2760.t1 | cds | g2760.t1.CDS3 | 20052813 | 20054683 |
| chr_3 | g2760 | g2760.t1 | exon | g2760.t1.exon4 | 20054741 | 20055280 |
| chr_3 | g2760 | g2760.t1 | cds | g2760.t1.CDS4 | 20054741 | 20055280 |
| chr_3 | g2760 | g2760.t1 | TTS | g2760.t1 | NA | NA |
Sequences
>g2760.t1 Gene=g2760 Length=3516
ATGGATAGGTCAATTTTGAATTCATCAATGTCTGCAATTAATAAGAGTTTTTCTGTACAA
ACAACACCTAAATCAAGAAATCGAAAGTCAATATTTCCTAAATCAATGAAAAATGTGAGC
ATATCTGGAAGATCAAACGCTTCAACAGTACAAATCGTAACGAGATCAGAATATAATATT
GTTGAAGTTTTTGGAAATTCACTGCCAATTAAAATTACAGAATTGTTAACCTTTAGTGAA
CGCAACACAACTGTTTCAGTTGCATATTCAACAAATGGTTGGGCATGGGCTGTTTGTGGA
AGAAAACTATTGATTTGGCAATATAAAGGTTCATCAAAATCACAAAGTGATTCCTCTAAA
CTAACAAAAACTCCATCGACATCAATTAGAAGTGTTCCAAGCCTATGCAGAGAGTTAACA
CTTCCACATTGTGATATTGGTCATAAAGCACGATTGATTAATGTATTTGTACCTGAAGGA
AGCCAAACAGCTGCATGCTTAGCAGTGTCAACAACAGGAGATGTAAGATTTTGGCCATCA
ATTGCTCATGATGGATCTTCATTAGATGAGAATGGTATTTTAGAGGGACAAGAATTTGAT
CAGCTGATCAATCTTTCACCACAAGGCTATTTGCTTGTAACAACAACATGCAATTTAGTA
CTATTACAAATACAAATTCAAGGTGGTCGACAGCGAATTGTCCACCGTACAATTAAACCT
CCAACTGGCTTTTTTGGTGGTTTTGGAAAAAAATTCGCAAGCATTCTCATTGGTATGAAT
AGCAATCAAGATAGTGAAAATAAACTTATTAAGATAACTTATGAAGCTGTCAACTCAATA
GAATATCATGTCAATATTTTATCTGAACACTCTCTTGCTCGGTGGTTATTTTCACCAAAT
AGCAGTGAAGTATTTCTTTATGAGGAACAAGAAATATCAAAAAAGATTCGTGAATATTTT
AGAACAAAAATGTGGCCAAATAGAAGTAGCATGAATGAACCAATTGATATGTGGATGCTT
GATATGCAGACTATTGATCGTGGTGTAATGATTTTGGCTGCAGGAGCAAACTTGGGATTA
ACTCCTCAAGTATTTCTGGTTTTAATTACTGTTATAGCAGAAGCAGACAATTTTCAAATA
AAAGATCTTCAATTAGTTCGATACAAGATTTTCTACAATCATCAACAACAAAATCTGTTT
GTGAAATTCAAATTCATCATTTGTCGTGGAATGGCCTATATTTATAGTGATAGACTTATC
ATACCAGTTATAATTCAACATAATACTCCTTTGCAACCACCAATTGATGATATAGAAAAA
ATTGAATTTCATCTTCAAGATGATCGTTTATTAGCTGCAGAAAATATTGCCGGATTGCCT
CTTTTTTTCTCTAGAATTCATGGAATAGTTTGCGTTACACCATCAGATTTTGAACCTGAT
TTCTTAAATAGCAGCATGAATGTTTCTACAACGAATTTATCAACTGTTGGGAATATAGAT
GTTTTTAGTCCTCAAATGACTGTTCATGATGCTTCAAATATTCTCTCACCAAGTACAACC
AATACTGGAAATTTATCAGTTTATTCTCTTGATCCAGAACAAATTCGCGAGAATAATCGA
GATGTTGTAAGTCAATTGAAAGCAGCTTTTATTTATCATTTGAAGAGAAATAGTAGCATG
TGTCATCAAATTATAAATGAGCTTTTTGGTAAACATGATGGTCGACAAACTGATAGTGAA
CTTGATAAAACTATATGTTGCATTGCAAAGGATATTGCTGAAGACATTCCTGCATCAGAT
CCACGTTGGGAGCAAGAACTTTCTAATAAGAGTGTAGTTGCTCTTGGTAGTTCAACATCA
ATGCAAATTATTCAACAACTTAGAGAGAAAAATTTTTGCATGATTAAATTTGTTGAATTT
CTTCATGGTGTCGGATTATGGAGTAAATTGATGGGTATAACTGAAAAAGGAAATGTAAAA
ATTACGACTTGCTTACTATCAGACATTAATGAGAAGATTGTTGCTGCAATTGCACTAAGA
TGTCTCCATCAAGCTCATTCACGGTTAATTGATGAGGCAATTGATTTGATTTTTCAGGAT
AACAATTCTTTGGCCACTGGAAGTCTAACAAATCAAGACATATTTTATACAAGTATTACA
TCAATTCAAGATATCTTTCGCAAATTCATGCAAATAATTGAAAATCTTATTCAACAAGAA
GTCCCAAATCATCAAGTACAGAACACAATTATCGAAATTAACACTATAATTCTTCAAGTA
TTGCAAGAAATTTTGAAGTTTCGTCAACAAAACACTAATCTTTACAAAGTTCAAATGTCG
GATGCAGTCAATTTTGAATATCAACCTTGGACAGCTGCAAGTGATGAAAATGGACTGCGA
GATACACTTTTACAAATTATTCAACTCACATTGCAGCATGGTATAAGATTGAATGGTGAA
GGCGAATATCGCTTCAAACATTATCAACATATGACTGATTTAATTGATTTTGTACTCGAT
GGAAGGAGAAATTTTTTAACAAGCATTAGAAATAATCCTGATAAATTGAACGTTCTACAT
CATCAGTATGAGTCTCAACGTTTTGATTTGATTTTTCCACTAGTTGAAGATGAACAATAT
GAGCTAGCTGCAAAACTTGCTGAAAAATATCTCGATTTTCAAATTCTCGTTATTATATGT
GACAAAACTGAAAATCAAATTCGATTGGATGAATATATTGAAAGATTTAAAGAACAAAAT
TTTTCACAATTTGCAATCAGTTGGCACATGAAACAGAATAAGCAGGGAGATTTATTTGAG
AGATTCCGTAATAATCAAGCAGAGTTAGCAAAGTTTTTAAACAATCATCCTTCACTTGCA
TGGATTCAATTAATGTTTAATGGTGAAATGGGAAAAGCTGCAGCAGTTCTCATGGAATTA
GCGCAAAATGAAGTTGAAAATGTTATGAGAAAAAAGACAATGCTATCGTTGTCCAAGCTC
TCAGCATATGCTTCTGAGATGGATTTAAGTCAACAAATAGAGGTTATCAATAGAGATTTG
CATTTAATTGAACATCAAAATCAAATTGATCCAGAAATATTGACAGCATTAGGATTTAAT
GTTGAAAACATGAGAGTTTTACAACCTGAAGAAATGATTGAACTTTATATTTCCGAAGAT
TATACATTATCAACTGAGATTGAATTTCGTAAAGCACTTGAATTAACAATCTATGTTGAG
GATTCGATTGATTATCGTAATAAAATCTGGTGTGCTGCAATTAGGAAAGATAATTGGCTT
GATATCAATATGGATGCTCCATTAGATAAGATAAGTGAAACGATTTTTTACAAGCTCGTT
GAACTCTGTTATGTTTTGGACAATGATCTTCAAACTTTTGTTCCACGTATAGACACGTTC
CTTACATCAATTGAGTTAGAGTCTTTGTTAAATGAGAAAGCATTTGTGTTTTTGATTAAA
TTAGCTTATGAACATATAATAGAAACATTTAAATAG
>g2760.t1 Gene=g2760 Length=1171
MDRSILNSSMSAINKSFSVQTTPKSRNRKSIFPKSMKNVSISGRSNASTVQIVTRSEYNI
VEVFGNSLPIKITELLTFSERNTTVSVAYSTNGWAWAVCGRKLLIWQYKGSSKSQSDSSK
LTKTPSTSIRSVPSLCRELTLPHCDIGHKARLINVFVPEGSQTAACLAVSTTGDVRFWPS
IAHDGSSLDENGILEGQEFDQLINLSPQGYLLVTTTCNLVLLQIQIQGGRQRIVHRTIKP
PTGFFGGFGKKFASILIGMNSNQDSENKLIKITYEAVNSIEYHVNILSEHSLARWLFSPN
SSEVFLYEEQEISKKIREYFRTKMWPNRSSMNEPIDMWMLDMQTIDRGVMILAAGANLGL
TPQVFLVLITVIAEADNFQIKDLQLVRYKIFYNHQQQNLFVKFKFIICRGMAYIYSDRLI
IPVIIQHNTPLQPPIDDIEKIEFHLQDDRLLAAENIAGLPLFFSRIHGIVCVTPSDFEPD
FLNSSMNVSTTNLSTVGNIDVFSPQMTVHDASNILSPSTTNTGNLSVYSLDPEQIRENNR
DVVSQLKAAFIYHLKRNSSMCHQIINELFGKHDGRQTDSELDKTICCIAKDIAEDIPASD
PRWEQELSNKSVVALGSSTSMQIIQQLREKNFCMIKFVEFLHGVGLWSKLMGITEKGNVK
ITTCLLSDINEKIVAAIALRCLHQAHSRLIDEAIDLIFQDNNSLATGSLTNQDIFYTSIT
SIQDIFRKFMQIIENLIQQEVPNHQVQNTIIEINTIILQVLQEILKFRQQNTNLYKVQMS
DAVNFEYQPWTAASDENGLRDTLLQIIQLTLQHGIRLNGEGEYRFKHYQHMTDLIDFVLD
GRRNFLTSIRNNPDKLNVLHHQYESQRFDLIFPLVEDEQYELAAKLAEKYLDFQILVIIC
DKTENQIRLDEYIERFKEQNFSQFAISWHMKQNKQGDLFERFRNNQAELAKFLNNHPSLA
WIQLMFNGEMGKAAAVLMELAQNEVENVMRKKTMLSLSKLSAYASEMDLSQQIEVINRDL
HLIEHQNQIDPEILTALGFNVENMRVLQPEEMIELYISEDYTLSTEIEFRKALELTIYVE
DSIDYRNKIWCAAIRKDNWLDINMDAPLDKISETIFYKLVELCYVLDNDLQTFVPRIDTF
LTSIELESLLNEKAFVFLIKLAYEHIIETFK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2760.t1 | Gene3D | G3DSA:2.130.10.10 | - | 46 | 476 | 2.5E-116 |
| 6 | g2760.t1 | Gene3D | G3DSA:1.25.40.700 | - | 537 | 1170 | 6.9E-193 |
| 3 | g2760.t1 | PANTHER | PTHR13405 | NUCLEAR PORE COMPLEX PROTEIN NUP133 | 16 | 1169 | 1.3E-198 |
| 1 | g2760.t1 | Pfam | PF08801 | Nup133 N terminal like | 57 | 416 | 3.2E-35 |
| 2 | g2760.t1 | Pfam | PF03177 | Non-repetitive/WGA-negative nucleoporin C-terminal | 687 | 1034 | 1.2E-17 |
| 7 | g2760.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 348 | - |
| 9 | g2760.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 349 | 373 | - |
| 8 | g2760.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 374 | 1171 | - |
| 4 | g2760.t1 | SUPERFAMILY | SSF117289 | Nucleoporin domain | 56 | 476 | 7.59E-89 |
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 |
| GO:0017056 | structural constituent of nuclear pore | MF |
KEGG
Orthology
- This transcript has been annotated with K14300 (nuclear pore complex protein Nup133)
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.
