FCF1 (FCF1 rRNA-processing protein) - Rat Genome Database

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Gene: FCF1 (FCF1 rRNA-processing protein) Sus scrofa
Analyze
Symbol: FCF1
Name: FCF1 rRNA-processing protein
RGD ID: 14055467
Description: INVOLVED IN endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (ortholog); endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (ortholog); ribosomal small subunit biogenesis (ortholog); PARTICIPATES IN ribosome biogenesis pathway; ASSOCIATED WITH genetic disease (ortholog); intellectual disability (ortholog); FOUND IN nucleolus (inferred); small-subunit processome (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: rRNA-processing protein FCF1 homolog
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl797,940,954 - 97,958,624 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1797,940,919 - 97,961,268 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27103,783,780 - 103,800,877 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:15679890   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
FCF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl797,940,954 - 97,958,624 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1797,940,919 - 97,961,268 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27103,783,780 - 103,800,877 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FCF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381474,713,144 - 74,738,620 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1474,713,144 - 74,738,620 (+)EnsemblGRCh38hg38GRCh38
GRCh371475,179,847 - 75,205,323 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361474,249,603 - 74,273,147 (+)NCBINCBI36Build 36hg18NCBI36
Build 341474,249,601 - 74,273,170NCBI
Celera1455,218,214 - 55,241,759 (+)NCBICelera
Cytogenetic Map14q24.3NCBI
HuRef1455,347,921 - 55,371,389 (+)NCBIHuRef
CHM1_11475,118,998 - 75,142,539 (+)NCBICHM1_1
T2T-CHM13v2.01468,922,243 - 68,947,721 (+)NCBIT2T-CHM13v2.0
Fcf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391285,017,704 - 85,030,077 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1285,017,671 - 85,030,077 (+)EnsemblGRCm39 Ensembl
GRCm381284,970,930 - 84,983,303 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1284,970,897 - 84,983,303 (+)EnsemblGRCm38mm10GRCm38
MGSCv371286,311,880 - 86,324,253 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361285,860,055 - 85,872,406 (+)NCBIMGSCv36mm8
Celera1286,428,196 - 86,440,569 (+)NCBICelera
Cytogenetic Map12D1NCBI
cM Map1239.48NCBI
Fcf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr86110,348,854 - 110,360,715 (+)NCBIGRCr8
mRatBN7.26104,617,780 - 104,629,643 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6104,617,770 - 104,629,643 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx6104,787,268 - 104,799,131 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.06105,086,441 - 105,098,304 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.06104,455,794 - 104,467,658 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.06108,796,182 - 108,808,051 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6108,796,182 - 108,808,048 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06116,748,856 - 116,760,725 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46109,016,578 - 109,028,439 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.16109,020,040 - 109,031,892 (+)NCBI
Celera6102,440,754 - 102,452,615 (+)NCBICelera
Cytogenetic Map6q31NCBI
Fcf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955523798,672 - 818,752 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955523801,117 - 818,521 (-)NCBIChiLan1.0ChiLan1.0
FCF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21575,795,872 - 75,819,487 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11475,012,403 - 75,035,994 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01455,265,211 - 55,288,827 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11474,112,199 - 74,134,008 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1474,112,253 - 74,133,348 (+)Ensemblpanpan1.1panPan2
FCF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1847,842,123 - 47,856,592 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha847,525,832 - 47,540,185 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0848,069,141 - 48,083,510 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl848,069,125 - 48,084,920 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1847,740,142 - 47,754,506 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0847,761,501 - 47,775,864 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0848,159,476 - 48,173,841 (+)NCBIUU_Cfam_GSD_1.0
LOC101956635
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864028,170,488 - 28,186,915 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364883,882,118 - 3,898,403 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364883,882,110 - 3,898,480 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FCF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12451,928,076 - 51,947,993 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605340,156,818 - 40,176,954 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fcf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473426,940,903 - 26,960,503 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473426,940,897 - 26,960,602 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in FCF1
634 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 10 3 3 5 1 23 2 3 3
Low 1 1
Below cutoff

Sequence


RefSeq Acc Id: ENSSSCT00000038693   ⟹   ENSSSCP00000045943
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl797,940,954 - 97,958,624 (+)Ensembl
RefSeq Acc Id: XM_003128655   ⟹   XP_003128703
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1797,940,919 - 97,958,194 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005656416   ⟹   XP_005656473
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1797,941,058 - 97,961,268 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013989168   ⟹   XP_013844622
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1797,940,993 - 97,961,268 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021099529   ⟹   XP_020955188
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1797,940,996 - 97,961,268 (+)NCBI
Sequence:
RefSeq Acc Id: XP_003128703   ⟸   XM_003128655
- Peptide Label: isoform X2
- UniProtKB: A0A287APX5 (UniProtKB/TrEMBL),   A0A4X1TD48 (UniProtKB/TrEMBL),   A0A8D1C5Z7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013844622   ⟸   XM_013989168
- Peptide Label: isoform X3
- UniProtKB: A0A8D0KGJ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020955188   ⟸   XM_021099529
- Peptide Label: isoform X3
- UniProtKB: A0A8D0KGJ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005656473   ⟸   XM_005656416
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSSSCP00000045943   ⟸   ENSSSCT00000038693
Protein Domains
PIN


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000039202 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005038563 UniProtKB/TrEMBL
  ENSSSCG00015078708 UniProtKB/TrEMBL
  ENSSSCG00025010318 UniProtKB/TrEMBL
  ENSSSCG00030033297 UniProtKB/TrEMBL
  ENSSSCG00035014754 UniProtKB/TrEMBL
  ENSSSCG00040056413 UniProtKB/TrEMBL
  ENSSSCG00045034981 UniProtKB/TrEMBL
  ENSSSCG00050067282 UniProtKB/TrEMBL
  ENSSSCG00055001141 UniProtKB/TrEMBL
  ENSSSCG00060010407 UniProtKB/TrEMBL
  ENSSSCG00065021939 UniProtKB/TrEMBL
  ENSSSCG00070008425 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000038693 ENTREZGENE
  ENSSSCT00000038693.3 UniProtKB/TrEMBL
  ENSSSCT00005061684.1 UniProtKB/TrEMBL
  ENSSSCT00005061817.1 UniProtKB/TrEMBL
  ENSSSCT00015106616.1 UniProtKB/TrEMBL
  ENSSSCT00025013605.1 UniProtKB/TrEMBL
  ENSSSCT00030046090.1 UniProtKB/TrEMBL
  ENSSSCT00035018734.1 UniProtKB/TrEMBL
  ENSSSCT00040076487.1 UniProtKB/TrEMBL
  ENSSSCT00045060096.1 UniProtKB/TrEMBL
  ENSSSCT00050091774.1 UniProtKB/TrEMBL
  ENSSSCT00055002028.1 UniProtKB/TrEMBL
  ENSSSCT00060013515.1 UniProtKB/TrEMBL
  ENSSSCT00065029179.1 UniProtKB/TrEMBL
  ENSSSCT00070016263.1 UniProtKB/TrEMBL
Gene3D-CATH 5'-nuclease UniProtKB/TrEMBL
InterPro Fcf1/Utp23 UniProtKB/TrEMBL
  Fcf1_PIN UniProtKB/TrEMBL
  PIN-like_dom_sf UniProtKB/TrEMBL
  PIN_dom UniProtKB/TrEMBL
KEGG Report ssc:100524688 UniProtKB/TrEMBL
NCBI Gene FCF1 ENTREZGENE
PANTHER RRNA-PROCESSING PROTEIN FCF1 HOMOLOG UniProtKB/TrEMBL
  UNCHARACTERIZED UniProtKB/TrEMBL
Pfam Fcf1 UniProtKB/TrEMBL
SMART PINc UniProtKB/TrEMBL
Superfamily-SCOP SSF88723 UniProtKB/TrEMBL
UniProt A0A287APX5 ENTREZGENE
  A0A4X1TD48 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0KGJ8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1C5Z7 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A287APX5 UniProtKB/TrEMBL
VGNC ID VGNC:88063 ENTREZGENE