General information for g11609.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nuclear pore complex protein Nup154.
Parent gene
- The parent gene g11609 is located on chr_1: 17436442..17437314 (- 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 | g11609 | g11609.t1 | isoform | g11609.t1 | 17432742 | 17437314 |
| chr_1 | g11609 | g11609.t1 | exon | g11609.t1.exon1 | 17432742 | 17432880 |
| chr_1 | g11609 | g11609.t1 | cds | g11609.t1.CDS1 | 17432742 | 17432880 |
| chr_1 | g11609 | g11609.t1 | exon | g11609.t1.exon2 | 17432939 | 17433179 |
| chr_1 | g11609 | g11609.t1 | cds | g11609.t1.CDS2 | 17432939 | 17433179 |
| chr_1 | g11609 | g11609.t1 | exon | g11609.t1.exon3 | 17433246 | 17436449 |
| chr_1 | g11609 | g11609.t1 | cds | g11609.t1.CDS3 | 17433246 | 17436449 |
| chr_1 | g11609 | g11609.t1 | exon | g11609.t1.exon4 | 17436515 | 17436671 |
| chr_1 | g11609 | g11609.t1 | cds | g11609.t1.CDS4 | 17436515 | 17436671 |
| chr_1 | g11609 | g11609.t1 | exon | g11609.t1.exon5 | 17436732 | 17436808 |
| chr_1 | g11609 | g11609.t1 | cds | g11609.t1.CDS5 | 17436732 | 17436808 |
| chr_1 | g11609 | g11609.t1 | exon | g11609.t1.exon6 | 17436873 | 17437026 |
| chr_1 | g11609 | g11609.t1 | cds | g11609.t1.CDS6 | 17436873 | 17437026 |
| chr_1 | g11609 | g11609.t1 | exon | g11609.t1.exon7 | 17437222 | 17437314 |
| chr_1 | g11609 | g11609.t1 | cds | g11609.t1.CDS7 | 17437222 | 17437314 |
| chr_1 | g11609 | g11609.t1 | TSS | g11609.t1 | 17437415 | 17437415 |
| chr_1 | g11609 | g11609.t1 | TTS | g11609.t1 | NA | NA |
Sequences
>g11609.t1 Gene=g11609 Length=4065
ATGAATACGGAAAATGCAGTATATAGTGAATATGAAATTGCTGGAAATATGATGGAAGAA
CATGAGAAAAGAGATCAATTGCTCTCAGTCGAGGCAATATTGCAACGGCAAGGAACATTC
AGTGGACTTAATGACTTTGATTACCAAGACTTGGCCAATCTCACAGAGGGCCGTATTAAA
GAACTTCAACAAATTAGGACTTTAAACAAGGTTCCAATTCCAAATGAGATTATGGAAAAT
TTCAAAAATATAAAATGTCACTGTCGAATGGGACTGTTTCCAGAGATTGGGCGAGCTTGG
TTAACAATTGATTCTGATATCTATATTTGGACATACGAACATTCACGAGATGTTGCTTAT
TTTGATGGATTAAGTCATTTGATTGTGAGCGTTGGACTCATCAAACCAAAACCAAATGTT
TTTATTAACGACGTAAGATACCTTCTGGTATTAACTACACCGATTGAAATCATTGTATTA
GGTGTTACTTTTGGAGATACAACTAAAGCATCTCATATTTCGGCCTCTCCATCTCGAACA
TTCGTTACAACAACTTTTGAGGAAATGCAACTTATGAATAAACCCATTTTTGTACTGAAT
ACCGATAATATTGGCATTACATGTATTGAAGGTTCTTCAGATGGACGGATATTTTTGGGT
GGAAGAGATGGATGTCTTTATGAAATCTGTTATCAAGCTGAATCAAATTGGTTTGGAAAA
AGATGTAAAAAAATCAATCATTCACAAGGACTGTTTTCTTATGTTTTACCTGGGTTTTTG
AAAGGATTTTCCGATGATGCAATAATGAAAATTGTGATTGATAATCAACGTAGTTTACTT
TACACTCTTACTGAAAAAGGTGCTATAGAAGTTTGGGATATAAGCGATAACACAGCTAAG
CGTATAGCTAGACTTTCACAAAATGACATAACAAATGCTGCCACTAATCACATCAAAACA
GTTGATTCGTCCATTTTCAAACCTGTCGTCGATTTATGCATTTTACCACCCGATGAATAT
ACTTGTCTACATATGATTGCAGTTACTCAAAGTGGAGTACGACTTTATTTTGCTGGATAT
TCGGGTACATATCAAACAGTAGTTGACCCTAAACAAATTAATCAACAGAAAATTCAAAAT
ATTTGTTTGCAACACATTAGACTTCCACCAGGATATACGCCAAATACAAATTATGGAAAG
CCAAAAAATGTCCATTCTGCATTTCACCACTCTGGTTCAGTCTTGATGGTTTCGACTTCA
CAACAAGATCAAGATTTACTTTGGTCGATGAACTCTGAACCTTTTCTTCATTCAGAAATG
AGTCCTTTAATATCAAGTGATTCTATGTATAGAATGTTGACTGAGTCATCCTCTTTACTG
CATTTGGATGGGTCTGTTTGGGCAATTGCTGAAGTGAAAGATAAGACTCAATTAACACTC
AAATATCCATTAAAAGAAGCACAACAACCAAAAAAAGTTATTCTATTAACATCACAAGGC
GCACATATCATTGAAATACTTAAATCAGTTGATTTATTGCAGCAACTTTTTGTTCTATGC
CATGGTGCACATCATGATGCAGTAAAAACTTTCTTTGAATTACAAAATGAATCTGAAAGT
TGTGCAAAAAGTTTATTACTTGCATGTATGGAATCAATACGTGGAACAGAAATGATGGTT
TGGGCAACACAAGCTTTCTTTAGATATGGAGGCGAACCGTATTTTTTCAATCCTCAAGCG
ATAAATCCTATGCAAAATGCAACTATCCAAGAAAGTGGTCCACGAATGTTTATGTCTACA
CCATATGCTGCTCCAAGATCAGCTTCTTTACATCAGCAAAGTATGCATCAATCGCAAATA
ACAGCAGTCAACAGCAACATAACTTTTCAACAACAGCAATCACAACAAATGGATCTTTAC
AATTTAAGATATTCCGCAAAGCATGGAGGATTATATTTGCATGTTGCTAGAATCTTGAGG
CCAATTTGGAATCGACGTTGTATTGATGAAAAATTATGCAGTACTATAACTATAAATGAT
TGCAATCAAATTCTTTCTGATATATTTGCTATTAGATCATTCTTGGAAGCAAATACTACT
GCTGGCTTGACAAAATCAAATACATCGTATAATTCATTTGTAGCTCATAATTATCCCCAT
TCTTTAAATGGTTTTCCAGTCAATAATCAATTGATACATCAACAGCAGCAGCAACAAAAA
AAAGAAGAAGCATTTGCTGAAGAAAAGAAATCTCTCGATGCACTCTTTAGCTTTATCAAA
TATACATGTGAAGTCATTTCTTTGTGGAAAATTCTTTGTGAACACCAATTTCATATATTG
ATTGAGCAATTTCCAATTGAACAGCGCCAATTAATTGAATCATGCATTTTTCGTGATTTA
ATCATTGTTCGTTCTGATTTGTGTGCATTTTTGATAGTATCAATAATCAATTCATATTTA
AATGATAATGCAAGTGTAAAGTTGATTTCAGAAAAACTTCGTGAAGTTTGCCCTACACTT
TATCGTAATGAGGATGCAGTTTCTCATAAAGCCACAGAAATTCTTAAATCAACAAAAACT
TGCAACAATGATGATGAACGACATGAAAGTTTTTTGAAAGCACTAGATTTATGCATTCAA
GCTGCACCAAAATTACCATTGGGAAGTATTTGTCAACAATTTTCAGCAGCTGGTTTCAAT
GAAGGTGTCATAAAACTTTGTACTGTTTTTGCTAATAAGCTTGATCCAAATGATACTGCA
TTACATTTTTATAAAAATAATTATCCATTTGATATAAACCAAATTCAAGCAAAAGATCAA
GAAGGTTATATTGCATATAGCAATCGTATGAAGTGTTATGAGGAAATTAAAAATATGCTC
CAATACGTCTACAGAAATTTGAGTGGAATTAATCAAATTGATCAACAGCAGAGTATAAGT
CAACAACTTCAGCATATTTTAAACATTGCTTTACAATCATCAGATCAATTGCTTCATGTT
GCTGTTTATGAATGGATGTTATTTAACAATCTTCTCATTGAAATGCTGAGTATTACTAAT
AGCTCACTTGGAGATTTTCTTTCATGTTCTGTAAATCAAACGCCAATAAATTTACATCTT
GCTGATCTTTTATGGAAATATTATGAACGCAATGGTCAACATTCATCAGCAGCAAAGATT
CTCGATAAATTAGCATCAATTCATAGTGACAAAGTTCCACTTACAAAAAGAATTGAATAT
TTAGCTAGAGCTGTTATGTCAATGAGAAGTGGCGATGGTCTTGGTTATTCAGTTCATAAT
GGAGAAATGTTGCGAGATTTAGAAGACAAGCTCGAAGTTGCACAAGTTCAAAAACAAATT
CACGATGCGCTATCTAGTGGTATTACTAGAAATAATATTGATGCATTACAAGTGCGTGAA
GCAATTAGAAATTTAGACATGCGACTTTTTAATATGAGTCAATTATATTCTGATTATGCT
GAAAATTTTGATTTGTGGGAGTGTCAATTAGTTATTCTTAATTGTTCACACCATAATGAA
CCACGTTTGATCAATTCAATTTGGAGTCATATACTAGATAAAGAGCTTGAAGAATCTGGA
AGTCCAACAGAAAAAGCACAACGATTGTTATCAAAAGTTCAAAGTCTTGCAAATGATTTT
GGTGTGAGTCCTTGTTTTCCTCTCGATTATCTAATAGGTGAATTGGAGCTGCGCTGTTTT
CATCTCAGATTGACAAATTCACCTGTAATAGATGCATTGTTCAATATGAACATTGATATT
GATATTGTTTTAGATATTTATACACATATTGTCACTGCAAATGAACGTGTATGGTTATCG
GATTATGATGAACTGTTTTTAATTAGATCTGTAAAACGATTACTAACACTTATTATTCAA
AAATATTTGCCTATTTCAAAAAACAGACGTCGAACTATTGCAAAAATGGAAGATTTGATA
TCAGCAGCTTTAAATGCACTATATACGAAGCAAGGTACGAATGAGACAAGAGAAATCACT
GAAGATCTAAGAAGAATTCGCTCAAACATTAATGCTTTTAATTAA
>g11609.t1 Gene=g11609 Length=1354
MNTENAVYSEYEIAGNMMEEHEKRDQLLSVEAILQRQGTFSGLNDFDYQDLANLTEGRIK
ELQQIRTLNKVPIPNEIMENFKNIKCHCRMGLFPEIGRAWLTIDSDIYIWTYEHSRDVAY
FDGLSHLIVSVGLIKPKPNVFINDVRYLLVLTTPIEIIVLGVTFGDTTKASHISASPSRT
FVTTTFEEMQLMNKPIFVLNTDNIGITCIEGSSDGRIFLGGRDGCLYEICYQAESNWFGK
RCKKINHSQGLFSYVLPGFLKGFSDDAIMKIVIDNQRSLLYTLTEKGAIEVWDISDNTAK
RIARLSQNDITNAATNHIKTVDSSIFKPVVDLCILPPDEYTCLHMIAVTQSGVRLYFAGY
SGTYQTVVDPKQINQQKIQNICLQHIRLPPGYTPNTNYGKPKNVHSAFHHSGSVLMVSTS
QQDQDLLWSMNSEPFLHSEMSPLISSDSMYRMLTESSSLLHLDGSVWAIAEVKDKTQLTL
KYPLKEAQQPKKVILLTSQGAHIIEILKSVDLLQQLFVLCHGAHHDAVKTFFELQNESES
CAKSLLLACMESIRGTEMMVWATQAFFRYGGEPYFFNPQAINPMQNATIQESGPRMFMST
PYAAPRSASLHQQSMHQSQITAVNSNITFQQQQSQQMDLYNLRYSAKHGGLYLHVARILR
PIWNRRCIDEKLCSTITINDCNQILSDIFAIRSFLEANTTAGLTKSNTSYNSFVAHNYPH
SLNGFPVNNQLIHQQQQQQKKEEAFAEEKKSLDALFSFIKYTCEVISLWKILCEHQFHIL
IEQFPIEQRQLIESCIFRDLIIVRSDLCAFLIVSIINSYLNDNASVKLISEKLREVCPTL
YRNEDAVSHKATEILKSTKTCNNDDERHESFLKALDLCIQAAPKLPLGSICQQFSAAGFN
EGVIKLCTVFANKLDPNDTALHFYKNNYPFDINQIQAKDQEGYIAYSNRMKCYEEIKNML
QYVYRNLSGINQIDQQQSISQQLQHILNIALQSSDQLLHVAVYEWMLFNNLLIEMLSITN
SSLGDFLSCSVNQTPINLHLADLLWKYYERNGQHSSAAKILDKLASIHSDKVPLTKRIEY
LARAVMSMRSGDGLGYSVHNGEMLRDLEDKLEVAQVQKQIHDALSSGITRNNIDALQVRE
AIRNLDMRLFNMSQLYSDYAENFDLWECQLVILNCSHHNEPRLINSIWSHILDKELEESG
SPTEKAQRLLSKVQSLANDFGVSPCFPLDYLIGELELRCFHLRLTNSPVIDALFNMNIDI
DIVLDIYTHIVTANERVWLSDYDELFLIRSVKRLLTLIIQKYLPISKNRRRTIAKMEDLI
SAALNALYTKQGTNETREITEDLRRIRSNINAFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g11609.t1 | Coils | Coil | Coil | 1104 | 1124 | - |
| 6 | g11609.t1 | Gene3D | G3DSA:1.25.40.450 | - | 847 | 1010 | 3.9E-17 |
| 7 | g11609.t1 | Gene3D | G3DSA:1.25.40.440 | - | 1014 | 1086 | 4.5E-14 |
| 8 | g11609.t1 | Gene3D | G3DSA:1.20.120.1880 | - | 1104 | 1332 | 1.3E-23 |
| 3 | g11609.t1 | PANTHER | PTHR10350:SF6 | NUCLEAR PORE COMPLEX PROTEIN NUP155 | 49 | 1344 | 1.6E-290 |
| 4 | g11609.t1 | PANTHER | PTHR10350 | NUCLEAR PORE COMPLEX PROTEIN NUP155 | 49 | 1344 | 1.6E-290 |
| 1 | g11609.t1 | Pfam | PF08801 | Nup133 N terminal like | 62 | 503 | 4.9E-103 |
| 2 | g11609.t1 | Pfam | PF03177 | Non-repetitive/WGA-negative nucleoporin C-terminal | 797 | 1199 | 2.6E-15 |
| 5 | g11609.t1 | SUPERFAMILY | SSF101908 | Putative isomerase YbhE | 163 | 433 | 1.57E-8 |
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:0005643 | nuclear pore | CC |
| GO:0006913 | nucleocytoplasmic transport | BP |
| GO:0017056 | structural constituent of nuclear pore | MF |
KEGG
Orthology
- This transcript has been annotated with K14312 (nuclear pore complex protein Nup155)
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.
