IFT56 (intraflagellar transport 56) - Rat Genome Database

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Gene: IFT56 (intraflagellar transport 56) Chlorocebus sabaeus
Analyze
Symbol: IFT56
Name: intraflagellar transport 56
RGD ID: 18713919
Description: ENCODES a protein that exhibits intraciliary transport particle B binding (inferred); INVOLVED IN manchette assembly (ortholog); spermatid development (ortholog); ASSOCIATED WITH BILIARY, RENAL, NEUROLOGIC, AND SKELETAL SYNDROME (ortholog); Caroli disease (ortholog); genetic disease (ortholog); FOUND IN intraciliary transport particle B (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: intraflagellar transport protein 56; tetratricopeptide repeat domain 26; tetratricopeptide repeat protein 26; TTC26
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121107,863,335 - 107,927,637 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl21107,864,275 - 107,927,736 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660724,700,925 - 4,765,661 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
IFT56
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121107,863,335 - 107,927,637 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl21107,864,275 - 107,927,736 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660724,700,925 - 4,765,661 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
IFT56
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387139,133,778 - 139,191,986 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7139,133,744 - 139,191,986 (+)EnsemblGRCh38hg38GRCh38
GRCh377138,818,524 - 138,876,732 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367138,469,064 - 138,525,086 (+)NCBINCBI36Build 36hg18NCBI36
Celera7133,556,647 - 133,612,709 (+)NCBICelera
Cytogenetic Map7q34NCBI
HuRef7133,128,180 - 133,184,243 (+)NCBIHuRef
CHM1_17138,752,226 - 138,808,298 (+)NCBICHM1_1
T2T-CHM13v2.07140,447,060 - 140,505,276 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27138,163,056 - 138,219,118 (+)NCBI
Ift56
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39638,358,400 - 38,404,582 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl638,358,404 - 38,404,582 (+)EnsemblGRCm39 Ensembl
GRCm38638,381,464 - 38,427,647 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl638,381,469 - 38,427,647 (+)EnsemblGRCm38mm10GRCm38
MGSCv37638,331,524 - 38,377,647 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36638,311,132 - 38,357,255 (+)NCBIMGSCv36mm8
Celera638,362,274 - 38,408,362 (+)NCBICelera
Cytogenetic Map6B1NCBI
cM Map617.76NCBI
Ift56
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8468,057,530 - 68,115,494 (+)NCBIGRCr8
mRatBN7.2467,090,622 - 67,154,707 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl467,090,660 - 67,147,903 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx472,032,338 - 72,090,212 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0467,953,414 - 68,011,307 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0466,351,188 - 66,409,069 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0466,090,178 - 66,147,998 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl466,090,209 - 66,148,001 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0465,904,439 - 65,960,061 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4465,922,943 - 65,981,026 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera462,110,206 - 62,167,871 (+)NCBICelera
Cytogenetic Map4q23NCBI
Ift56
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554943,861,519 - 3,905,399 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554943,861,679 - 3,905,499 (-)NCBIChiLan1.0ChiLan1.0
IFT56
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26175,943,920 - 176,005,051 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1727,954,179 - 28,015,305 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07131,092,241 - 131,150,109 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17143,578,586 - 143,636,362 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7143,579,500 - 143,636,362 (+)Ensemblpanpan1.1panPan2
IFT56
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1169,528,236 - 9,581,089 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl169,530,445 - 9,580,839 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1610,369,687 - 10,422,557 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0169,447,557 - 9,500,778 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl169,447,564 - 9,500,586 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1169,398,002 - 9,451,214 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0169,241,571 - 9,294,301 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0169,313,105 - 9,366,335 (-)NCBIUU_Cfam_GSD_1.0
Ift56
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511815,750,987 - 15,817,008 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365923,403,690 - 3,466,525 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365923,402,950 - 3,468,174 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IFT56
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1810,462,669 - 10,509,565 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11810,462,670 - 10,509,595 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21810,945,088 - 10,992,004 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Ift56
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476519,532,100 - 19,586,804 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476519,531,910 - 19,588,703 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 10 19
Low 26 17 41
Below cutoff 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000006498   ⟹   ENSCSAP00000004701
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl21107,864,275 - 107,927,736 (+)Ensembl
RefSeq Acc Id: XM_007983094   ⟹   XP_007981285
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.121107,863,351 - 107,927,637 (+)NCBI
Vero_WHO_p1.0NW_0236660724,700,925 - 4,765,661 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007983095   ⟹   XP_007981286
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.121107,863,352 - 107,927,637 (+)NCBI
Vero_WHO_p1.0NW_0236660724,700,925 - 4,763,801 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007983099   ⟹   XP_007981290
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.121107,863,346 - 107,927,637 (+)NCBI
Vero_WHO_p1.0NW_0236660724,700,925 - 4,763,801 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007983100   ⟹   XP_007981291
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.121107,863,348 - 107,927,637 (+)NCBI
Vero_WHO_p1.0NW_0236660724,700,940 - 4,765,661 (+)NCBI
Sequence:
RefSeq Acc Id: XM_037991150   ⟹   XP_037847078
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660724,700,930 - 4,765,661 (+)NCBI
RefSeq Acc Id: XM_037991151   ⟹   XP_037847079
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660724,700,925 - 4,765,661 (+)NCBI
RefSeq Acc Id: XM_037991152   ⟹   XP_037847080
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660724,701,888 - 4,765,661 (+)NCBI
RefSeq Acc Id: XM_037991153   ⟹   XP_037847081
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660724,700,938 - 4,765,661 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_007981290   ⟸   XM_007983099
- Peptide Label: isoform X5
- UniProtKB: A0A0D9R7W2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007981291   ⟸   XM_007983100
- Peptide Label: isoform X8
- UniProtKB: A0A0D9R7W2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007981285   ⟸   XM_007983094
- Peptide Label: isoform X1
- UniProtKB: A0A0D9R7W2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007981286   ⟸   XM_007983095
- Peptide Label: isoform X3
- UniProtKB: A0A0D9R7W2 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000004701   ⟸   ENSCSAT00000006498
RefSeq Acc Id: XP_037847079   ⟸   XM_037991151
- Peptide Label: isoform X4
- UniProtKB: A0A0D9R7W2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037847078   ⟸   XM_037991150
- Peptide Label: isoform X2
- UniProtKB: A0A0D9R7W2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037847081   ⟸   XM_037991153
- Peptide Label: isoform X7
- UniProtKB: A0A0D9R7W2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037847080   ⟸   XM_037991152
- Peptide Label: isoform X6
- UniProtKB: A0A0D9R7W2 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000008494 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000006498.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
InterPro TPR-like_helical_dom_sf UniProtKB/TrEMBL
  TPR_repeat UniProtKB/TrEMBL
  TTC26 UniProtKB/TrEMBL
NCBI Gene TTC26 ENTREZGENE
PANTHER INTRAFLAGELLAR TRANSPORT PROTEIN 56 UniProtKB/TrEMBL
  PTHR14781 UniProtKB/TrEMBL
Pfam ANAPC3 UniProtKB/TrEMBL
SMART TPR UniProtKB/TrEMBL
Superfamily-SCOP SSF48452 UniProtKB/TrEMBL
UniProt A0A0D9R7W2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-02-28 IFT56  intraflagellar transport 56  TTC26  tetratricopeptide repeat domain 26  Symbol and/or name change 5135510 APPROVED