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ciliary base - Ontology Report - Rat Genome Database

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ONTOLOGY REPORT - ANNOTATIONS

Term:ciliary base
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Accession:GO:0097546 term browser browse the term
Definition:Area of the cilium (also called flagellum) where the basal body and the axoneme are anchored to the plasma membrane. The ciliary base encompasses the distal part of the basal body, transition fibers and transition zone and is structurally and functionally very distinct from the rest of the cilium. In this area proteins are sorted and filtered before entering the cilium, and many ciliary proteins localize specifically to this area.
Comment:Due to resolution issues, researchers are often unable to assign protein localization to more specific ciliary compartments such as the basal body, transition fibers or transition zone, and instead refer to 'ciliary base'. The terms GO:0036064 'ciliary basal body', GO:0097539 'ciliary transition fiber' and GO:0035869 'ciliary transition zone' represent strictly defined compartments at the ciliary base and should be used for annotation whenever possible. Also, note that cilia and eukaryotic flagella are deemed to be equivalent.
Synonyms:exact_synonym: cilial base;   cilium base;   flagellar base;   flagellum base

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ciliary base term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G C8h11orf97 similar to human chromosome 11 open reading frame 97 is_active_in IBA
ISO		 GO_REF:0000033
(PMID:27914912)		 GO_Central
RGD		 PMID:27914912 GO_REF:0000033 NCBI chr 8:19,884,682...19,901,931
Ensembl chr 8:11,603,225...11,618,729 		JBrowse link
G Cep126 centrosomal protein 126 located_in
is_active_in		 ISO
IBA
IEA		 (PMID:24867236)
GO_REF:0000033
GO_REF:0000002		 RGD
GO_Central
InterPro		 PMID:24867236 GO_REF:0000002 GO_REF:0000033 NCBI chr 8:13,485,211...13,552,711
Ensembl chr 8:5,218,509...5,267,467 		JBrowse link
G Cfap144 cilia and flagella associated protein 144 is_active_in IBA
ISO		 GO_REF:0000033
(PMID:27914912)		 GO_Central
RGD		 PMID:27914912 GO_REF:0000033 NCBI chr10:44,009,412...44,019,281
Ensembl chr10:43,509,826...43,520,086 		JBrowse link
G Cfap36 cilia and flagella associated protein 36 is_active_in
located_in		 IBA
ISO
IEA		 GO_REF:0000033
(PMID:26455799)
GO_REF:0000107		 GO_Central
RGD
Ensembl		 PMID:26455799 GO_REF:0000033 GO_REF:0000107 NCBI chr14:107,166,932...107,192,531
Ensembl chr14:102,966,001...102,991,555 		JBrowse link
G Cfap418 cilia and flagella associated protein 418 located_in ISO (PMID:22177090) RGD PMID:22177090 NCBI chr 5:28,789,580...28,812,891
Ensembl chr 5:23,996,718...24,015,605 		JBrowse link
G Cibar1 CBY1 interacting BAR domain containing 1 located_in ISO
IEA		 (PMID:27528616)
GO_REF:0000107		 RGD
Ensembl		 PMID:27528616 GO_REF:0000107 NCBI chr 5:30,411,325...30,429,770
Ensembl chr 5:25,614,033...25,632,489 		JBrowse link
G Cilk1 ciliogenesis associated kinase 1 located_in ISS
IEA
ISO		 GO_REF:0000024
GO_REF:0000107
(PMID:25243405)		 UniProt
Ensembl
RGD		 PMID:25243405 GO_REF:0000024 GO_REF:0000107 NCBI chr 8:87,868,294...87,922,995
Ensembl chr 8:78,984,258...79,042,691 		JBrowse link
G Clcn4 chloride voltage-gated channel 4 is_active_in ISO (PMID:26546361) RGD PMID:26546361 NCBI chr  X:27,290,769...27,356,967
Ensembl chr  X:23,729,338...23,793,238 		JBrowse link
G Cluap1 clusterin associated protein 1 located_in ISO (PMID:23742838) RGD PMID:23742838 NCBI chr10:12,094,346...12,159,440
Ensembl chr10:11,588,017...11,619,711 		JBrowse link
G Cplane2 ciliogenesis and planar polarity effector complex subunit 2 is_active_in ISO
IEA		 (PMID:29038301)
GO_REF:0000107		 RGD
Ensembl		 PMID:29038301 GO_REF:0000107 NCBI chr 5:158,798,503...158,799,451
Ensembl chr 5:153,515,376...153,522,508 		JBrowse link
G Disc1 DISC1 scaffold protein located_in ISO
IEA		 (PMID:20531939)
GO_REF:0000107		 RGD
Ensembl		 PMID:20531939 GO_REF:0000107 NCBI chr19:69,911,548...70,120,970
Ensembl chr19:53,014,616...53,219,778 		JBrowse link
G Dnali1 dynein, axonemal, light intermediate chain 1 located_in
is_active_in		 ISO
IBA		 (PMID:29317443)
GO_REF:0000033		 RGD
GO_Central		 PMID:29317443 GO_REF:0000033 NCBI chr 5:142,603,132...142,611,970
Ensembl chr 5:137,318,477...137,327,336 		JBrowse link
G Dync2i1 dynein 2 intermediate chain 1 located_in ISO
IEA		 (PMID:23910462), (PMID:25830415)
GO_REF:0000107		 RGD
Ensembl		 PMID:23910462 PMID:25830415 GO_REF:0000107 NCBI chr 6:143,276,441...143,333,006
Ensembl chr 6:137,133,418...137,188,719 		JBrowse link
G Dynlt2b dynein light chain Tctex-type 2B located_in ISO (PMID:25830415) RGD PMID:25830415 NCBI chr11:81,864,195...81,872,555
Ensembl chr11:68,358,263...68,367,499 		JBrowse link
G Dzip1 DAZ interacting zinc finger protein 1 located_in ISO
IEA		 (PMID:25860027)
GO_REF:0000107		 RGD
Ensembl		 PMID:25860027 GO_REF:0000107 NCBI chr15:102,363,392...102,417,085
Ensembl chr15:95,956,398...96,010,066 		JBrowse link
G Enkd1 enkurin domain containing 1 located_in ISO (PMID:29257953) RGD PMID:29257953 NCBI chr19:50,501,963...50,506,447
Ensembl chr19:33,592,078...33,596,545 		JBrowse link
G Fank1 fibronectin type III and ankyrin repeat domains 1 is_active_in ISO
IEA		 (PMID:27914912)
GO_REF:0000107		 RGD
Ensembl		 PMID:27914912 GO_REF:0000107 NCBI chr 1:198,007,496...198,114,790
Ensembl chr 1:188,577,575...188,685,504 		JBrowse link
G Ift122 intraflagellar transport 122 located_in ISO (PMID:21209331) RGD PMID:21209331 NCBI chr 4:150,577,525...150,648,052
Ensembl chr 4:148,905,046...148,975,458 		JBrowse link
G Ift20 intraflagellar transport 20 located_in
is_active_in		 ISO
IBA
IEA		 (PMID:31637240)
(PMID:15337773)
GO_REF:0000033
GO_REF:0000107		 RGD
GO_Central
Ensembl		 PMID:15337773 PMID:31637240 GO_REF:0000033 GO_REF:0000107 NCBI chr10:63,930,629...63,936,174
Ensembl chr10:63,432,633...63,438,124 		JBrowse link
G Ift52 intraflagellar transport 52 located_in ISO
IEA		 (PMID:31637240)
(PMID:16775004)
GO_REF:0000107		 RGD
Ensembl		 PMID:16775004 PMID:31637240 GO_REF:0000107 NCBI chr 3:172,091,591...172,116,497
Ensembl chr 3:151,672,493...151,696,980 		JBrowse link
G Ift56 intraflagellar transport 56 is_active_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 4:68,057,530...68,115,494
Ensembl chr 4:67,090,660...67,147,903 		JBrowse link
G Ift57 intraflagellar transport 57 located_in ISO
IEA		 (PMID:31637240)
GO_REF:0000107		 RGD
Ensembl		 PMID:31637240 GO_REF:0000107 NCBI chr11:64,528,349...64,593,545
Ensembl chr11:51,059,611...51,124,812 		JBrowse link
G Ift88 intraflagellar transport 88 is_active_in
located_in		 IBA
ISO		 GO_REF:0000033
(PMID:16775004), (PMID:19654211), (PMID:21653639)		 GO_Central
RGD		 PMID:16775004 PMID:19654211 PMID:21653639 GO_REF:0000033 NCBI chr15:35,685,678...35,786,875
Ensembl chr15:31,573,376...31,672,147 		JBrowse link
G Invs inversin located_in ISO (PMID:20169535) RGD PMID:20169535 NCBI chr 5:62,610,916...62,763,813
Ensembl chr 5:62,610,968...62,763,350 		JBrowse link
G Kcnf1 potassium voltage-gated channel modifier subfamily F member 1 is_active_in ISO
IEA		 (PMID:26546361)
GO_REF:0000107		 RGD
Ensembl		 PMID:26546361 GO_REF:0000107 NCBI chr 6:45,691,028...45,693,706
Ensembl chr 6:39,962,307...39,964,979 		JBrowse link
G Kcnj10 potassium inwardly-rectifying channel, subfamily J, member 10 is_active_in ISO (PMID:26546361) RGD PMID:26546361 NCBI chr13:87,334,510...87,367,747
Ensembl chr13:84,802,009...84,835,461 		JBrowse link
G Kcnq1 potassium voltage-gated channel subfamily Q member 1 is_active_in ISO
IEA		 (PMID:26546361)
GO_REF:0000107		 RGD
Ensembl		 PMID:26546361 GO_REF:0000107 NCBI chr 1:207,721,134...208,054,073
Ensembl chr 1:198,291,766...198,624,669 		JBrowse link
G LOC120103024 ciliogenesis and planar polarity effector 2-like is_active_in IEA GO_REF:0000107 Ensembl GO_REF:0000107 NCBI chr 5:158,798,246...158,806,187
Ensembl chr 5:153,515,376...153,522,508 		JBrowse link
G Magi2 membrane associated guanylate kinase, WW and PDZ domain containing 2 located_in ISS
ISO		 GO_REF:0000024
(PMID:24608321)		 UniProt
RGD		 PMID:24608321 GO_REF:0000024 NCBI chr 4:15,278,518...16,762,427
Ensembl chr 4:14,386,399...15,870,240 		JBrowse link
G Mlf1 myeloid leukemia factor 1 is_active_in ISO
IEA		 (PMID:27914912)
GO_REF:0000107		 RGD
Ensembl		 PMID:27914912 GO_REF:0000107 NCBI chr 2:153,958,060...153,991,705
Ensembl chr 2:151,648,511...151,681,652 		JBrowse link
G Mok MOK protein kinase located_in ISO (PMID:25243405) RGD PMID:25243405 NCBI chr 6:129,823,794...129,854,669
Ensembl chr 6:129,823,795...129,854,700 		JBrowse link
G Nek8 NIMA-related kinase 8 located_in ISO
IEA		 (PMID:20169535)
GO_REF:0000107		 RGD
Ensembl		 PMID:20169535 GO_REF:0000107 NCBI chr10:63,558,940...63,570,954
Ensembl chr10:63,061,253...63,072,416 		JBrowse link
G Nphp1 nephrocystin 1 located_in ISO (PMID:20169535) RGD PMID:20169535 NCBI chr 3:135,413,927...135,469,505
Ensembl chr 3:114,960,650...115,016,234 		JBrowse link
G Nphp3 nephrocystin 3 located_in
is_active_in		 ISO
IBA
IEA		 (PMID:20169535)
GO_REF:0000033
GO_REF:0000107		 RGD
GO_Central
Ensembl		 PMID:20169535 GO_REF:0000033 GO_REF:0000107 NCBI chr 8:113,500,708...113,541,179
Ensembl chr 8:104,621,864...104,662,383 		JBrowse link
G Nphp4 nephrocystin 4 is_active_in
located_in		 IBA
ISO
IEA		 GO_REF:0000033
(PMID:20169535)
GO_REF:0000107		 GO_Central
RGD
Ensembl		 PMID:20169535 GO_REF:0000033 GO_REF:0000107 NCBI chr 5:168,270,522...168,356,393
Ensembl chr 5:162,988,370...163,073,706 		JBrowse link
G Odad2 outer dynein arm docking complex subunit 2 located_in ISO (PMID:23849778) RGD PMID:23849778 NCBI chr17:59,910,665...60,104,929
Ensembl chr17:55,218,991...55,409,399 		JBrowse link
G Pqbp1 polyglutamine binding protein 1 IDA RGD PMID:23994472 RGD:9685166 NCBI chr  X:17,275,445...17,280,018
Ensembl chr  X:14,603,539...14,608,087 		JBrowse link
G Prkaca protein kinase cAMP-activated catalytic subunit alpha located_in IEA
ISO		 GO_REF:0000107
(PMID:22007132)		 Ensembl
RGD		 PMID:22007132 GO_REF:0000107 NCBI chr19:41,059,843...41,083,189
Ensembl chr19:24,155,090...24,178,430 		JBrowse link
G Prkacb protein kinase cAMP-activated catalytic subunit beta located_in ISO
IEA		 (PMID:22007132)
GO_REF:0000107		 RGD
Ensembl		 PMID:22007132 GO_REF:0000107 NCBI chr 2:238,297,140...238,389,317
Ensembl chr 2:235,636,885...235,726,198 		JBrowse link
G Prkar2b protein kinase cAMP-dependent type II regulatory subunit beta located_in ISO
IEA		 (PMID:22007132)
GO_REF:0000107		 RGD
Ensembl		 PMID:22007132 GO_REF:0000107 NCBI chr 6:54,291,143...54,381,639
Ensembl chr 6:48,563,662...48,653,933 		JBrowse link
G Rab8a RAB8A, member RAS oncogene family located_in IEA
ISO		 GO_REF:0000107
(PMID:24947469)		 Ensembl
RGD		 PMID:24947469 GO_REF:0000107 NCBI chr16:17,688,049...17,709,412
Ensembl chr16:17,654,034...17,675,678 		JBrowse link
G Spaca9 sperm acrosome associated 9 is_active_in IBA
ISO		 GO_REF:0000033
(PMID:27914912)		 GO_Central
RGD		 PMID:27914912 GO_REF:0000033 NCBI chr 3:32,417,350...32,426,776
Ensembl chr 3:12,019,363...12,029,119 		JBrowse link
G Traf3ip1 TRAF3 interacting protein 1 located_in ISO
IEA
ISS		 (PMID:26487268)
GO_REF:0000107
GO_REF:0000024		 RGD
Ensembl
UniProt		 PMID:26487268 GO_REF:0000024 GO_REF:0000107 NCBI chr 9:99,521,176...99,557,966
Ensembl chr 9:92,073,640...92,108,977 		JBrowse link
G Ttbk2 tau tubulin kinase 2 located_in ISO
IEA		 (PMID:29038301)
GO_REF:0000107		 RGD
Ensembl		 PMID:29038301 GO_REF:0000107 NCBI chr 3:128,144,851...128,256,630
Ensembl chr 3:107,697,340...107,803,223 		JBrowse link
G Tulp3 TUB like protein 3 located_in ISO
IEA		 (PMID:20889716)
GO_REF:0000107		 RGD
Ensembl		 PMID:20889716 GO_REF:0000107 NCBI chr 4:163,276,583...163,318,297
Ensembl chr 4:161,590,479...161,632,149 		JBrowse link
G Ush1g USH1 protein network component sans located_in ISO
IEA		 (PMID:24608321)
GO_REF:0000107		 RGD
Ensembl		 PMID:24608321 GO_REF:0000107 NCBI chr10:101,055,923...101,062,753
Ensembl chr10:100,557,629...100,563,590 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  cellular_component 21366
    cellular anatomical structure 21071
      ciliary base 46
Path 2
Term Annotations click to browse term
  cellular_component 21366
    cellular anatomical structure 21071
      organelle 14293
        membrane-bounded organelle 12863
          cilium 1002
            ciliary base 46
paths to the root