KEGG   Rattus norvegicus (rat): 684558
Entry
684558            CDS       T01003                                 
Symbol
Upf1
Name
(RefSeq) UPF1, RNA helicase and ATPase
  KO
K14326  regulator of nonsense transcripts 1 [EC:3.6.4.13 5.6.2.3]
Organism
rno  Rattus norvegicus (rat)
Pathway
rno03013  Nucleocytoplasmic transport
rno03015  mRNA surveillance pathway
Brite
KEGG Orthology (KO) [BR:rno00001]
 09120 Genetic Information Processing
  09122 Translation
   03013 Nucleocytoplasmic transport
    684558 (Upf1)
   03015 mRNA surveillance pathway
    684558 (Upf1)
 09180 Brite Hierarchies
  09182 Protein families: genetic information processing
   03019 Messenger RNA biogenesis [BR:rno03019]
    684558 (Upf1)
Enzymes [BR:rno01000]
 5. Isomerases
  5.6  Isomerases altering macromolecular conformation
   5.6.2  Enzymes altering nucleic acid conformation
    5.6.2.3  DNA 5'-3' helicase
     684558 (Upf1)
Messenger RNA biogenesis [BR:rno03019]
 Eukaryotic type
  mRNA surveillance and transport factors
   Surveillance factors
    Surveillance complex
     684558 (Upf1)
   mRNA cycle factors
    Common to processing body (P body) and stress granule
     684558 (Upf1)
SSDB
Motif
Pfam: UPF1_Zn_bind AAA_12 AAA_11 UPF1_1B_dom AAA_30 AAA_19 ResIII SLFN-g3_helicase ATPase nSTAND3 Helicase_RecD DEAD AAA_16 UvrD-helicase SRP54 UvrD_C_2 AAA_22
Other DBs
NCBI-GeneID: 684558
NCBI-ProteinID: NP_001414288
RGD: 1589127
Ensembl: ENSRNOG00000020134
Vega: OTTRNOG00000001982
Position
16:19110531..19131327
AA seq 1113 aa
MSVEAYGPSSQTLTFLDTEEAELLGADTQGSEFEFTDFTLPSQTQTPPGGPGGAGGPGGA
GAGGAAGQLDAQVGPEGILQNGAVDDSVAKTSQLLAELNFEEDEEDTYYTKDLPVHACSY
CGIHDPACVVYCNTSKKWFCNGRGNTSGSHIVNHLVRAKCKEVTLHKDGPLGETVLECYN
CGCRNVFLLGFIPAKADSVVVLLCRQPCASQSSLKDINWDSSQWQPLIQDRCFLSWLVKI
PSEQEQLRARQITAQQINKLEELWKENPSATLEDLEKPGVDEEPQHVLLRYEDAYQYQNI
FGPLVKLEADYDKKLKESQTQDNITVRWDLGLNKKRIAFFTLPKTDSDMRLMQGDEICLR
YKGDLAPLWKGIGHVIKVPDNYGDEIAIELRSSVGAPVEVTHNFQVDFVWKSTSFDRMQS
ALKTFAVDETSVSGYIYHKLLGHEVEDVVIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQR
PLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRLC
AKSREAIDSPVSFLALHNQIRNMDSMPELQKLQQLKDETGELSSADEKRYRALKRTAERE
LLMNADVICCTCVGAGDPRLAKMQFRSILIDESTQATEPECMVPVVLGAKQLILVGDHCQ
LGPVVMCKKAAKAGLSQSLFERLVVLGIRPIRLQVQYRMHPALSAFPSNIFYEGSLQNGV
TAADRVKKGFDFQWPQPDKPMFFYVTQGQEEIASSGTSYLNRTEAANVEKITTKLLKAGA
KPDQIGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRAN
EHQGIGFLNDPRRLNVALTRARYGVIIVGNPKALSKQPLWNHLLSYYKEQKALVEGPLNN
LRESLMQFSKPRKLVNTVNPGARFMTTAMYDAREAIIPGSVYDRSSQGRPSNMYFQTHDQ
ISMISAGPSHVAAMNIPIPFNLVMPPMPPPGYFGQANGPAAGRGTPKSKTGRGGRQKNRF
GLPGPSQTTLPNSQASQDVASQPFSQGALTQGYVSMSQPSQMSQPGLSQPELSQDSYLGD
EFKSQIDVALSQDSTYQGERAYQHGGVTGLSQY
NT seq 3342 nt   +upstreamnt  +downstreamnt
atgagcgtggaggcgtacggccccagctctcagacactcaccttcttggacactgaggag
gccgagctgctcggtgccgacacccagggctccgagttcgagttcaccgacttcacccta
cccagccagacgcagacgccccccggcggccccggcggcgcgggaggcccaggcggagcg
ggtgcaggcggcgcggccggccagctcgacgcgcaagttggaccagagggcatcttgcaa
aatggggctgtggatgacagtgtggccaagaccagccagctgctggctgagctgaacttc
gaggaagatgaagaggacacatattataccaaggacctcccagtccatgcctgcagttac
tgcggaatccatgatcctgcctgcgtggtttactgtaataccagcaagaagtggttctgc
aacggccgaggaaatacttctggcagccacattgtaaatcacctcgtgagggcaaaatgc
aaggaagtgacgctgcacaaggacgggcccctgggtgagacagtactggagtgctacaac
tgtggctgccggaacgtcttcctgctgggcttcatccctgcgaaggcggactctgtggtg
gtgctgttgtgcaggcagccctgcgccagccagagcagcctgaaggacatcaactgggac
agctcccagtggcagcccctgatccaggaccggtgcttcctgtcatggctggtcaagatt
ccctctgagcaggagcagctgcgagcacgacagatcactgcacagcagatcaacaagctg
gaggagctctggaaggaaaatccttcagcaaccctggaggatctggagaagccgggcgtg
gatgaggagccgcagcacgtgctcctgcggtacgaggatgcttaccagtaccagaacatc
ttcgggccactggtcaagctggaggctgactatgacaagaagttgaaggagtcacagact
caagataacatcacggtcaggtgggacctgggccttaacaagaagagaatcgccttcttc
actttgcccaagactgactctgatatgcggctgatgcagggggatgagatctgtctgcgg
tacaaaggggatctggcacccctatggaaggggattggccacgtcatcaaggttcccgat
aattatggtgatgagattgccattgaactccgcagtagcgtgggtgcccccgtggaagtg
acccacaacttccaagtggattttgtgtggaagtcaacctcttttgataggatgcagagt
gcattgaagaccttcgctgtggacgagacctctgtgtcagggtatatttaccacaagctg
ctgggccacgaggtggaagatgttgtcatcaagtgccagctgccaaagcgcttcacggct
caggggctccccgacctcaaccactctcaggtgtatgctgtgaagactgtgctgcagaga
cccctcagcctcatccagggccctccaggcacaggcaagactgtgacatcagccaccatt
gtctaccaccttgctcggcagggcaatgggcccgtgctagtctgtgctccaagtaacatt
gccgtggaccagctcacggagaagatccaccagactgggctgaaggtcgtacgcctctgt
gccaagagccgtgaggccattgattccccagtgtccttcctggctttgcacaaccagatc
aggaacatggacagcatgcctgagctgcagaagctgcagcagctgaaggatgagacaggc
gagctgtcatctgcagatgagaagcggtaccgggcgcttaagcgcacagctgagagagaa
cttctcatgaatgcagatgtcatctgctgcacatgtgtgggtgctggtgacccgaggctg
gccaagatgcagttccgttccatcctcattgacgagagcacccaggccactgagcctgag
tgcatggtgcctgtagtccttggggccaagcagctgatcctcgtgggtgaccactgccag
ctgggcccagtagtgatgtgcaagaaggcagccaaggccgggttgtctcaatcgctcttc
gagcgcttggtggtgctgggcatccggcccatccgcctgcaggtgcaataccgcatgcac
cctgcactcagcgccttcccgtccaacatcttctacgagggctcgctgcagaatggcgtc
actgcagccgatcgtgtcaagaaaggttttgacttccagtggccacagcctgacaagccc
atgttcttctacgtgacacagggccaggaggagattgccagctctggcacatcctacctc
aacaggacggaggcagccaatgtggagaagataacgacaaagctgctgaaggcaggcgcg
aagcctgaccagattggcatcatcactccctacgagggccagcgctcctacttggtgcag
tacatgcagttcagcggctccctgcacacgaagctctaccaggaagtggagattgcaagc
gtggatgccttccagggccgggagaaggacttcatcatcctgtcctgcgtgcgtgccaat
gagcaccagggtattgggttcttaaacgacccccggcgtctcaatgtggctctcaccaga
gcaaggtacggggtgatcatcgtgggtaacccaaaggcactgtcgaagcagcccctgtgg
aaccacctgctgagctactacaaggagcagaaggcgctggtggaagggccgctcaacaac
ctgcgggagagcctcatgcagttcagcaagcctcgcaagcttgtcaacaccgtcaatccg
ggggcccgcttcatgactactgccatgtatgatgcccgtgaggctatcatccccggatct
gtctatgaccgcagcagccagggccggccctcaaacatgtacttccagacccatgaccag
attagcatgatcagcgcaggtcccagccatgtggctgccatgaacatccccattcccttc
aacttggtcatgcctcccatgccaccacctgggtacttcggacaggccaacgggccagct
gctggtcggggcaccccaaaaagcaagactggccgtggaggccgccagaagaaccgcttt
gggcttcctgggcccagccagactacccttcccaacagccaggccagccaggatgtggcc
tcacagcccttttcgcagggtgccctcacacaaggttatgtgtccatgagccagccctct
cagatgagccagcctggcctctcccagccagaattgtcccaggacagctacctcggtgat
gagtttaaatcacagattgacgtggcactctcacaagactccacataccagggagagcgg
gcataccagcacggcggggtcaccgggctgtcccagtactag

  All links  
Ontology (3)   
   KEGG BRITE (3)   
Pathway (2)   
   KEGG PATHWAY (2)   
Chemical reaction (2)   
   KEGG ENZYME (2)   
Genome (1)   
   KEGG GENOME (1)   
Gene (7)   
   KEGG ORTHOLOGY (1)   
   NCBI-PROTEINID (1)   
   NCBI-Gene (1)   
   Ensembl (1)   
   OC (1)   
   RGD (1)   
   VEGA (1)   
Protein sequence (4)   
   UniProt (1)   
   RefSeq(pep) (3)   
DNA sequence (5)   
   RefSeq(nuc) (3)   
   GenBank (1)   
   EMBL (1)   
Protein domain (17)   
   Pfam (17)   
All databases (41)   

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