Gene loci information

Transcript annotation

  • This transcript has been annotated as Nuclear pore complex protein Nup160-like protein.

Parent gene

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 g13195 g13195.t1 TSS g13195.t1 28450619 28450619
chr_1 g13195 g13195.t1 isoform g13195.t1 28450813 28455021
chr_1 g13195 g13195.t1 exon g13195.t1.exon1 28450813 28451656
chr_1 g13195 g13195.t1 cds g13195.t1.CDS1 28450813 28451656
chr_1 g13195 g13195.t1 exon g13195.t1.exon2 28451718 28452124
chr_1 g13195 g13195.t1 cds g13195.t1.CDS2 28451718 28452124
chr_1 g13195 g13195.t1 exon g13195.t1.exon3 28452186 28454879
chr_1 g13195 g13195.t1 cds g13195.t1.CDS3 28452186 28454879
chr_1 g13195 g13195.t1 exon g13195.t1.exon4 28454938 28455021
chr_1 g13195 g13195.t1 cds g13195.t1.CDS4 28454938 28455021
chr_1 g13195 g13195.t1 TTS g13195.t1 28455124 28455124

Sequences

>g13195.t1 Gene=g13195 Length=4029
ATGAAATTTCGTGAAGTTGCACCGAATTCGGCTTCTGAAGAATGGAAAGATATCAAATTG
AACATTGGAGGTAGCCATAGCACTCTACAAGACATTAAAGTACAAAGGCAAGCTGCAGGT
TTTTGCTACAAGAATGATGAATTTATAAGAAATCGATTTATTTACTGGCGTACTTGTGAT
GATATTGTGCTAGAATTAAGTGAAAATAGTCTGGATGTCAATTTAAAGAACAAGAATTTA
CGATTAACATTTGAAGAGTCCCCAATTTTAGCAGTAAATATCAGTGAAACTCATGACAAT
GTCGTGATTCTTGTTACTACAATCAGCAACATTCATCGATTTCAATTTATTCATCCAAGA
AGAAATATTGGATCAAATGGCGAGCAAAATGAAAATTCAATCTTCAATTCTATTTCACAA
GAGTCAGTAAAAGATCCTTCATCGTTTTATACAATTAGCAATTTGCTCGCTCAAAATGTT
CCTCATTCAGCTGCTTGCTACTTATCACCAACAAGTGAAGATGCGTATTTTGCAGTTGCT
CATACAAATCATCTCTTACTCTTTCAAATGAATTGTTTTAGTGGACATACTGGTGTTATT
GAATTGAAAAACTTTCAAATACTTCCTAAAATTTTTAGCAACTTTACAGATGCTATTCGT
GGTAAAAGTAATGTGAATGATAGTAACTATGTAACATCGATGGTATTTGATACTATTGGT
GGTGAAAATGTTCTTTATGCACTATATCGGGATAATAACATTCGAATGTGGTCAACAAGA
ACTGGTCAATGTTTATTTACAATGAATATTGTTAGAGATAACGACGAAAGAAGAAGTCAA
GGAACTCAGAATAACATTCTGAAAAAGTCAACAACAACATCAACTCTCTGTGTATTTCTT
TCATATGGCAATGGATCTGAATTTCAATTATTCAAACCAACATGGGATGGAGGAAGTACT
TTCACAATAGTTCCAGTAAATCTTGTAACAGCACCGCAATATGATTTAGTTGATTTCGAA
TTGACAGATGAAAAGTTGTGGGGACTTTGGTGTAATTCAGAAGGTGACATGCACATTTCT
GCTTATGTGTTTAAACCTGTATCAGAAGAATGCTGGCGAACTGCTATTTTGGAAGGAATT
TCTGGAAAGAGACGAACAGTTGAAGCTGAAATGGATGCAAAGCACATTTATTGTTCAAAC
ATTTTTCGTCCAGGCAAATTTCAAGCTACGACAATCTCAAAAGCTTTAATGATGTTTAGT
CGTTCTACAAATTACAGTGATGCCTTTACACCCATGCATATTCTTAAAGAACGTGTTTGT
CAAGCAATTGATTCTGAAATTCAAAATGAAATGAAAATGCATGATCTTTCAGAAGATGAG
TATATTGAGGTAGCAATTAATAATTGGGAGAAATTTTATTCCTGCTGTGAACAGTATCAC
ATTGCGGCACATCAACCCGTTGGCATTTTTATTCTTGATTCACTGGACGCCATATGTGTG
ATCAAAACAAGTTTGATATCATTTTTAAGACCATGTGATATAATTGAAAATATGTTGCTG
TCTGGCTCGTGCCCTAGCAACTTTTCTATTGATGATATGCTGAAAGATGACTTAAATTGT
CTCATTCAAACACTATATTATCTCGAAAATAACTTGTCGATTGATGTAAAATTGGAGATT
TCAAATAATTTGTTCAAGCTTAAAATGCCACATGCTATAATCTCGGATTTGATTTCACAA
ATACGAAATGAGGAAGATTTTGATGTGTCGATTCCGCGTGAACTTATTAATGATGTTGCA
AAGCGCTTAAGACCAATTAAAGATATTCAAAGTGCTATGAGTGTCATTCTCAATTTACTT
CGACTTGATAGAAATAACTTCAGTGATGATGAATTTAATGATGATTTGTCAATTTTTCAA
AAGCAACTATTTTCTGGAAATTATGGAAGTTCACTTGTATCTGAAACTGTTCGACAAATT
TCTTCAAGTCGATTTGCAATGTGCCGAAATTTGCTTATCGCTCAAAATATTTTGATTGAT
GGCTTTTTATTAAACTGCAACGAGACTGAGATTATTAGATCTAAAAATATACCAGAAACT
ATTCTCTTTCTTCAATCGTACTATGTAATGGTTTGGATAGGTGAAGACGCGTTTGCACAA
CCACAAGCTAAATCAAATTTGATTGGTTTCAATATGCAAGGAGGTTATAGTCAATCATCA
TCATTGCTGCAGTTATTTGTTAGAAACAAGGGACTCGATGTAGCGCTCAAACTCTATTTC
AATAATGACCAAATGGATGATGATGGTGATGATTTTGAAATTGAAAATTTTTGGTCAAAG
AATCTTCTTACAATTGCAAGTTTCATTGAAAGATTCATTTGGGCTATTTCTGGACGTTTT
ATCTTTGGTGAATGGCTTGCAACGACTAATCAGCATTTATTAATTGAGGAATATGTTCGA
TTGCTTCACGATTGGTGTGAATATAATTCATGTTCAAGACAGTTCATTTTAGCATTATCA
TTTCTTGAAACTGGTGAAGCACATAAAGCATACGATATGTTCATTGAATCTGCTAAAGGA
GCTTTAACTGAGCCATTTTTGCAACAATATATTGGAATAACAGATATGAAGAGTACCAGT
GAAATTCTTGCTCAATACTATCTAAAAGTAATGCGATTATTTGAGAAATATGAAGTTTAC
GATTGCGTAATTAGCATTGCGGAAGTTGCAATTGGTACGGCTGAAAAAGACAACTCCCAA
TTGGCAATGTTTCAAAGTATTATTTTTAATAATCATATGCATTTGAAACACTATGAAGAA
GCTTATCATTCACTGATTCACAATGTCGAAATGTCACGAAGGAAAGACTGCCTTAGGCAA
CTTGTCATCATGCTATTTCAAGAGAAACGCTTCGACATTCTCATCAATTTTCCATACAAT
AATCTAGAACAGGATTTGCAAAATATTGTTGAAACTCGTGCACGGTCGATGCAAATTGAA
AACAATGAACACTACAATTTCCTCTATTCATATCATATCAAGACTAATAATATGAAGAGA
GCTGCCATAGTTATGTATGAGAAGGCACTACGTTATTTGTATGAAGGAAACACAGTTGAA
GCTCTACAACAACGATACAATAGTTTACTTGCATGCTACAATGCACTCTCATTAGTTGAC
GTCGCATATCGTTGGCTAGCTAAACCGGTAATAGAAGATCCTAAAACAGAAGAAGATGCT
GATGAAATGATGGAGAGTGAATCACCAACACAAATTGAGGTCATTGAAATAAAAGATATT
CAAAAGGAATTGCTTGTGGCTGAATCTCTTTTATGCATTGCAAAATCAAAGGATTTGAAA
TTGATTATGAAAATGGGACCAAAGGAACTTATAATTCTGTTGTCGAATCAGCGTTTCTAT
ACTACAGCATTGAAGCTGGCCAAAGGATATAAGCTATCGTTAGCACCAATTTTTGAAAGT
TTAACTCTAGCTTGCTTAAAATCATCAAATATCGAGTTCAATGACAATCTCGATTGGCTT
AATCAAAACAATTTGGGTGATTTGTCTTTAACAGTGAGTTGCAGTGAAATGTCTTGGATT
TATTTGAAAAAGCTATTGGAAGATGAAGATAAAGAGAATGAATATTGTCGCGAAGTAGTT
CGTCATATTTTGGCTAATCAAGCATTTATTCCTCAATGGCTTTTGGATATTTACAAGAAA
AATAAACCATCTGAATTACTTTATTTGTATCTTCAATATGGTCGACTTGATGAAGCTGCT
GAGCTGGCAATTGATTTTGTGAGAGCTTTCTTAGGATATGGAAGTGAAATTTTCGGATTT
AATACTTACATTGCTAAAACTCATCCATCATTTCCGGTTAACACAATTGATTTGTTATTA
TATCAACTTAAAGCACATGGTGAAAAGGATCAAACATGTCGAGATAATTATAAGCTACTG
AAAGAAACAATTAATGAATATTTGAAAACTGCAAATACAATGACTTTGGAGAGTATGGTA
GCAATTTAA

>g13195.t1 Gene=g13195 Length=1342
MKFREVAPNSASEEWKDIKLNIGGSHSTLQDIKVQRQAAGFCYKNDEFIRNRFIYWRTCD
DIVLELSENSLDVNLKNKNLRLTFEESPILAVNISETHDNVVILVTTISNIHRFQFIHPR
RNIGSNGEQNENSIFNSISQESVKDPSSFYTISNLLAQNVPHSAACYLSPTSEDAYFAVA
HTNHLLLFQMNCFSGHTGVIELKNFQILPKIFSNFTDAIRGKSNVNDSNYVTSMVFDTIG
GENVLYALYRDNNIRMWSTRTGQCLFTMNIVRDNDERRSQGTQNNILKKSTTTSTLCVFL
SYGNGSEFQLFKPTWDGGSTFTIVPVNLVTAPQYDLVDFELTDEKLWGLWCNSEGDMHIS
AYVFKPVSEECWRTAILEGISGKRRTVEAEMDAKHIYCSNIFRPGKFQATTISKALMMFS
RSTNYSDAFTPMHILKERVCQAIDSEIQNEMKMHDLSEDEYIEVAINNWEKFYSCCEQYH
IAAHQPVGIFILDSLDAICVIKTSLISFLRPCDIIENMLLSGSCPSNFSIDDMLKDDLNC
LIQTLYYLENNLSIDVKLEISNNLFKLKMPHAIISDLISQIRNEEDFDVSIPRELINDVA
KRLRPIKDIQSAMSVILNLLRLDRNNFSDDEFNDDLSIFQKQLFSGNYGSSLVSETVRQI
SSSRFAMCRNLLIAQNILIDGFLLNCNETEIIRSKNIPETILFLQSYYVMVWIGEDAFAQ
PQAKSNLIGFNMQGGYSQSSSLLQLFVRNKGLDVALKLYFNNDQMDDDGDDFEIENFWSK
NLLTIASFIERFIWAISGRFIFGEWLATTNQHLLIEEYVRLLHDWCEYNSCSRQFILALS
FLETGEAHKAYDMFIESAKGALTEPFLQQYIGITDMKSTSEILAQYYLKVMRLFEKYEVY
DCVISIAEVAIGTAEKDNSQLAMFQSIIFNNHMHLKHYEEAYHSLIHNVEMSRRKDCLRQ
LVIMLFQEKRFDILINFPYNNLEQDLQNIVETRARSMQIENNEHYNFLYSYHIKTNNMKR
AAIVMYEKALRYLYEGNTVEALQQRYNSLLACYNALSLVDVAYRWLAKPVIEDPKTEEDA
DEMMESESPTQIEVIEIKDIQKELLVAESLLCIAKSKDLKLIMKMGPKELIILLSNQRFY
TTALKLAKGYKLSLAPIFESLTLACLKSSNIEFNDNLDWLNQNNLGDLSLTVSCSEMSWI
YLKKLLEDEDKENEYCREVVRHILANQAFIPQWLLDIYKKNKPSELLYLYLQYGRLDEAA
ELAIDFVRAFLGYGSEIFGFNTYIAKTHPSFPVNTIDLLLYQLKAHGEKDQTCRDNYKLL
KETINEYLKTANTMTLESMVAI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g13195.t1 PANTHER PTHR21286 NUCLEAR PORE COMPLEX PROTEIN NUP160 7 1319 0.00e+00
1 g13195.t1 Pfam PF11715 Nucleoporin Nup120/160 46 516 0.00e+00
3 g13195.t1 SUPERFAMILY SSF50978 WD40 repeat-like 164 276 4.03e-05

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

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.

Raw TPM values