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UBERON:0004117

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Name:pharyngeal pouch
Namespace:FANTOM
Definition:"embryonic structure that forms on the endodermal side between the pharyngeal arches, and pharyngeal grooves (or clefts) form the lateral ectodermal surface of the neck region to separate the arches. The pouches line up with the clefts, and these thin segments become gills in fish[WP]. Outpocketings of pharyngeal endoderm that interdigitate with the neural crest derived pharyngeal arches. The pouches later fuse with the surface ectoderm to form the gill slits[ZFA]." [Wikipedia:Pharyngeal_pouch_(embryology)]
Xrefs:
links:

AAO:0011113
EFO:0003627
EHDAA:1086
EHDAA:1669
EHDAA:579
EHDAA:617
ncithesaurus:Pharyngeal_Pouch
SCTID:34674002
TAO:0001106
VHOG:0001203
XAO:0000282

ZFA:0001106
Synonyms: "branchial pouch" EXACT [Wikipedia:Branchial_pouch]
"visceral pouch" EXACT SENSU []
Comments:Editor notes: consider adding location (precursor) - i.e. internal (endodermal) // The pouches are polarized structures. For example, whereas the rostral half of each pouch expresses Bmp-7, the caudal half expresses FGF-8 and the dorsal aspect of each pouch is marked via its expression of Pax-1. each pouch has an individual sense of identity. Shh expression is a prominent early feature of the caudal endoderm of the second arch, and individual pouches mark the anterior limits of expression of Hox genes within the pharyngeal endoderm; Hox-a2 has a rostral boundary at the second pouch, Hox-a3 at the third pouch and Hox-a4 at the most caudal pouch[PMID:16313389]
Subset: vertebrate_core

Ontology association
Each term has an is_a parent in the Uberon Ontology, which has a linkage to an another entity and FANTOM5 samples.Libraries were grouped into mutually exclusive facets according to the FANTOM5 sample ontology mapping to UBERON ontologies.

link to ontology dataset
data


Parents

is_a:UBERON:0003258(endoderm of foregut),UBERON:0004814(upper respiratory tract epithelium),UBERON:0005291(embryonic tissue)
develops_from:UBERON:0007690(early pharyngeal endoderm)
part_of:UBERON:0000922(embryo),UBERON:0008814(pharyngeal arch system)



Children

is a:UBERON:0007123 (pharyngeal pouch 2)

Ontology Tree: Loaded from BioPortal


FF samples
It includes FANTOM5 samples that overlay the Uberon ontology




Enrichment analysis: top 100 FFCP enriched with this ontology term TOP 100 FANTOM5 Cage Peaks enriched with UBERON:0004117 (pharyngeal pouch), sorted by p-values
Analyst: Hideya Kawaji

link to source dataset
human : data
mouse : data


P-valueFFCPShort description
7.76e-118FFCP PHASE1:Hg19::chr8:11333461..11333472,-#_e540cd819c08d64773a2b60af8f41feep@chr8:11333461..11333472, -
7.76e-118FFCP PHASE2:Hg19::chr8:11333461..11333472,-#_e540cd819c08d64773a2b60af8f41feep@chr8:11333461..11333472, -
6.64e-89FFCP PHASE1:Hg19::chr8:11333445..11333459,-#_40491460f5c175c177f48c5a0df6f08ep@chr8:11333445..11333459, -
6.64e-89FFCP PHASE2:Hg19::chr8:11333445..11333459,-#_40491460f5c175c177f48c5a0df6f08ep@chr8:11333445..11333459, -
3.18e-79FFCP PHASE1:Hg19::chr14:36645825..36645840,-#_9d7cda78a5649b6dcd1e05b3b3a32639p5@ENST00000556013
3.18e-79FFCP PHASE2:Hg19::chr14:36645825..36645840,-#_9d7cda78a5649b6dcd1e05b3b3a32639p5@ENST00000556013
3.49e-79FFCP PHASE1:Hg19::chr8:133895164..133895167,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133895164..133895167, +
3.49e-79FFCP PHASE1:Hg19::chr8:11333494..11333497,-#_418c7d621035fe6f76942ddbffea874cp@chr8:11333494..11333497, -
3.49e-79FFCP PHASE2:Hg19::chr8:133961114..133961122,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133961114..133961122, +
3.49e-79FFCP PHASE1:Hg19::chr2:134788828..134788834,-#_418c7d621035fe6f76942ddbffea874cp@chr2:134788828..134788834, -
3.49e-79FFCP PHASE1:Hg19::chr8:134107327..134107332,+#_418c7d621035fe6f76942ddbffea874cp29@TG
3.49e-79FFCP PHASE2:Hg19::chr8:133899413..133899418,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133899413..133899418, +
3.49e-79FFCP PHASE2:Hg19::chr8:133953595..133953600,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133953595..133953600, +
3.49e-79FFCP PHASE1:Hg19::chr22:31521904..31521930,+#_418c7d621035fe6f76942ddbffea874cp@chr22:31521904..31521930, +
3.49e-79FFCP PHASE2:Hg19::chr8:134145709..134145716,+#_418c7d621035fe6f76942ddbffea874cp18@TG
3.49e-79FFCP PHASE1:Hg19::chr7:107301406..107301418,+#_418c7d621035fe6f76942ddbffea874cp5@SLC26A4
3.49e-79FFCP PHASE1:Hg19::chr8:133981730..133981736,+#_418c7d621035fe6f76942ddbffea874cp38@TG
3.49e-79FFCP PHASE2:Hg19::chr8:133894780..133894789,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133894780..133894789, +
3.49e-79FFCP PHASE1:Hg19::chr8:133898734..133898737,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133898734..133898737, +
3.49e-79FFCP PHASE2:Hg19::chr19:20473429..20473445,+#_418c7d621035fe6f76942ddbffea874cp@chr19:20473429..20473445, +
3.49e-79FFCP PHASE1:Hg19::chr2:1417344..1417367,+#_418c7d621035fe6f76942ddbffea874cp@chr2:1417344..1417367, +
3.49e-79FFCP PHASE2:Hg19::chr1:36771641..36771644,+#_418c7d621035fe6f76942ddbffea874cp11@SH3D21
3.49e-79FFCP PHASE2:Hg19::chr8:133882027..133882038,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133882027..133882038, +
3.49e-79FFCP PHASE2:Hg19::chr7:107301447..107301451,+#_418c7d621035fe6f76942ddbffea874cp23@SLC26A4
3.49e-79FFCP PHASE1:Hg19::chr4:88047429..88047437,+#_418c7d621035fe6f76942ddbffea874cp@chr4:88047429..88047437, +
3.49e-79FFCP PHASE2:Hg19::chr6:43837226..43837237,-#_418c7d621035fe6f76942ddbffea874cp@chr6:43837226..43837237, -
3.49e-79FFCP PHASE2:Hg19::chr8:133899244..133899254,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133899244..133899254, -
3.49e-79FFCP PHASE1:Hg19::chr8:133961114..133961122,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133961114..133961122, +
3.49e-79FFCP PHASE2:Hg19::chr2:1426812..1426834,+#_418c7d621035fe6f76942ddbffea874cp5@TPO
3.49e-79FFCP PHASE2:Hg19::chr16:66420861..66420868,+#_418c7d621035fe6f76942ddbffea874cp@chr16:66420861..66420868, +
3.49e-79FFCP PHASE1:Hg19::chr8:133899004..133899013,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133899004..133899013, -
3.49e-79FFCP PHASE1:Hg19::chr15:64421903..64421920,+#_418c7d621035fe6f76942ddbffea874cp@chr15:64421903..64421920, +
3.49e-79FFCP PHASE2:Hg19::chr8:11333494..11333497,-#_418c7d621035fe6f76942ddbffea874cp@chr8:11333494..11333497, -
3.49e-79FFCP PHASE1:Hg19::chr8:133900339..133900344,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133900339..133900344, -
3.49e-79FFCP PHASE1:Hg19::chr8:134145709..134145716,+#_418c7d621035fe6f76942ddbffea874cp18@TG
3.49e-79FFCP PHASE1:Hg19::chr8:133885414..133885420,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133885414..133885420, -
3.49e-79FFCP PHASE1:Hg19::chr9:100615454..100615457,-#_418c7d621035fe6f76942ddbffea874cp@chr9:100615454..100615457, -
3.49e-79FFCP PHASE2:Hg19::chr18:24321747..24321752,-#_418c7d621035fe6f76942ddbffea874cp@chr18:24321747..24321752, -
3.49e-79FFCP PHASE1:Hg19::chr8:133953595..133953600,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133953595..133953600, +
3.49e-79FFCP PHASE1:Hg19::chr8:133895195..133895206,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133895195..133895206, +
3.49e-79FFCP PHASE2:Hg19::chr2:1457477..1457487,+#_418c7d621035fe6f76942ddbffea874cp@chr2:1457477..1457487, +
3.49e-79FFCP PHASE2:Hg19::chr2:1440068..1440076,+#_418c7d621035fe6f76942ddbffea874cp@chr2:1440068..1440076, +
3.49e-79FFCP PHASE1:Hg19::chr14:21560489..21560506,-#_418c7d621035fe6f76942ddbffea874cp@chr14:21560489..21560506, -
3.49e-79FFCP PHASE2:Hg19::chr8:133898957..133898963,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133898957..133898963, -
3.49e-79FFCP PHASE1:Hg19::chr2:1457477..1457487,+#_418c7d621035fe6f76942ddbffea874cp@chr2:1457477..1457487, +
3.49e-79FFCP PHASE2:Hg19::chr14:21560489..21560506,-#_418c7d621035fe6f76942ddbffea874cp@chr14:21560489..21560506, -
3.49e-79FFCP PHASE2:Hg19::chr8:134145732..134145736,+#_418c7d621035fe6f76942ddbffea874cp27@TG
3.49e-79FFCP PHASE2:Hg19::chr8:133895164..133895167,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133895164..133895167, +
3.49e-79FFCP PHASE1:Hg19::chr8:133898904..133898911,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133898904..133898911, +
3.49e-79FFCP PHASE1:Hg19::chr19:20473429..20473445,+#_418c7d621035fe6f76942ddbffea874cp@chr19:20473429..20473445, +
3.49e-79FFCP PHASE2:Hg19::chr8:133981694..133981700,+#_418c7d621035fe6f76942ddbffea874cp35@TG
3.49e-79FFCP PHASE2:Hg19::chr8:133900307..133900325,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133900307..133900325, -
3.49e-79FFCP PHASE1:Hg19::chr9:100616714..100616732,+#_418c7d621035fe6f76942ddbffea874cp@chr9:100616714..100616732, +
3.49e-79FFCP PHASE1:Hg19::chr14:67998625..67998628,-#_418c7d621035fe6f76942ddbffea874cp@chr14:67998625..67998628, -
3.49e-79FFCP PHASE1:Hg19::chr2:1417430..1417444,+#_418c7d621035fe6f76942ddbffea874cp@chr2:1417430..1417444, +
3.49e-79FFCP PHASE2:Hg19::chr8:134108463..134108470,+#_418c7d621035fe6f76942ddbffea874cp@chr8:134108463..134108470, +
3.49e-79FFCP PHASE2:Hg19::chr2:134788828..134788834,-#_418c7d621035fe6f76942ddbffea874cp@chr2:134788828..134788834, -
3.49e-79FFCP PHASE1:Hg19::chr21:39644214..39644219,+#_418c7d621035fe6f76942ddbffea874cp21@KCNJ15
3.49e-79FFCP PHASE2:Hg19::chr2:1426850..1426859,+#_418c7d621035fe6f76942ddbffea874cp10@TPO
3.49e-79FFCP PHASE2:Hg19::chr8:133898734..133898737,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133898734..133898737, +
3.49e-79FFCP PHASE1:Hg19::chr8:133878995..133879011,+#_418c7d621035fe6f76942ddbffea874cp32@TG
3.49e-79FFCP PHASE1:Hg19::chr7:88388628..88388669,+#_418c7d621035fe6f76942ddbffea874cp6@ZNF804B
3.49e-79FFCP PHASE1:Hg19::chr6:43837226..43837237,-#_418c7d621035fe6f76942ddbffea874cp@chr6:43837226..43837237, -
3.49e-79FFCP PHASE2:Hg19::chr8:133978809..133978829,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133978809..133978829, +
3.49e-79FFCP PHASE1:Hg19::chr8:133981694..133981700,+#_418c7d621035fe6f76942ddbffea874cp35@TG
3.49e-79FFCP PHASE1:Hg19::chr8:133900347..133900354,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133900347..133900354, -
3.49e-79FFCP PHASE1:Hg19::chr8:134145732..134145736,+#_418c7d621035fe6f76942ddbffea874cp27@TG
3.49e-79FFCP PHASE1:Hg19::chr8:133895229..133895236,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133895229..133895236, -
3.49e-79FFCP PHASE2:Hg19::chr2:1457500..1457511,+#_418c7d621035fe6f76942ddbffea874cp@chr2:1457500..1457511, +
3.49e-79FFCP PHASE1:Hg19::chr2:134788853..134788858,-#_418c7d621035fe6f76942ddbffea874cp@chr2:134788853..134788858, -
3.49e-79FFCP PHASE1:Hg19::chr8:134108463..134108470,+#_418c7d621035fe6f76942ddbffea874cp@chr8:134108463..134108470, +
3.49e-79FFCP PHASE2:Hg19::chr4:88047429..88047437,+#_418c7d621035fe6f76942ddbffea874cp@chr4:88047429..88047437, +
3.49e-79FFCP PHASE2:Hg19::chr7:88388628..88388669,+#_418c7d621035fe6f76942ddbffea874cp6@ZNF804B
3.49e-79FFCP PHASE2:Hg19::chr7:107301340..107301345,+#_418c7d621035fe6f76942ddbffea874cp13@SLC26A4
3.49e-79FFCP PHASE2:Hg19::chr2:1440089..1440096,+#_418c7d621035fe6f76942ddbffea874cp@chr2:1440089..1440096, +
3.49e-79FFCP PHASE2:Hg19::chr14:81421428..81421431,+#_418c7d621035fe6f76942ddbffea874cp11@TSHR
3.49e-79FFCP PHASE2:Hg19::chr8:133899004..133899013,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133899004..133899013, -
3.49e-79FFCP PHASE1:Hg19::chr2:1457500..1457511,+#_418c7d621035fe6f76942ddbffea874cp@chr2:1457500..1457511, +
3.49e-79FFCP PHASE2:Hg19::chr8:133885414..133885420,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133885414..133885420, -
3.49e-79FFCP PHASE2:Hg19::chr8:133906083..133906088,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133906083..133906088, +
3.49e-79FFCP PHASE1:Hg19::chr7:107301447..107301451,+#_418c7d621035fe6f76942ddbffea874cp23@SLC26A4
3.49e-79FFCP PHASE2:Hg19::chr8:133895195..133895206,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133895195..133895206, +
3.49e-79FFCP PHASE2:Hg19::chr8:133981703..133981711,+#_418c7d621035fe6f76942ddbffea874cp31@TG
3.49e-79FFCP PHASE1:Hg19::chr8:133900606..133900611,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133900606..133900611, +
3.49e-79FFCP PHASE2:Hg19::chr8:133900339..133900344,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133900339..133900344, -
3.49e-79FFCP PHASE1:Hg19::chr8:133898763..133898768,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133898763..133898768, -
3.49e-79FFCP PHASE2:Hg19::chr6:148533199..148533206,+#_418c7d621035fe6f76942ddbffea874cp@chr6:148533199..148533206, +
3.49e-79FFCP PHASE1:Hg19::chr8:133883693..133883699,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133883693..133883699, -
3.49e-79FFCP PHASE2:Hg19::chr14:67998625..67998628,-#_418c7d621035fe6f76942ddbffea874cp@chr14:67998625..67998628, -
3.49e-79FFCP PHASE1:Hg19::chr8:133978809..133978829,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133978809..133978829, +
3.49e-79FFCP PHASE1:Hg19::chr1:36771641..36771644,+#_418c7d621035fe6f76942ddbffea874cp11@SH3D21
3.49e-79FFCP PHASE2:Hg19::chr8:133935716..133935719,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133935716..133935719, +
3.49e-79FFCP PHASE2:Hg19::chr8:133948038..133948045,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133948038..133948045, +
3.49e-79FFCP PHASE1:Hg19::chr16:66420861..66420868,+#_418c7d621035fe6f76942ddbffea874cp@chr16:66420861..66420868, +
3.49e-79FFCP PHASE2:Hg19::chr8:133898904..133898911,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133898904..133898911, +
3.49e-79FFCP PHASE1:Hg19::chr8:133894753..133894756,-#_418c7d621035fe6f76942ddbffea874cp@chr8:133894753..133894756, -
3.49e-79FFCP PHASE1:Hg19::chr8:133906083..133906088,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133906083..133906088, +
3.49e-79FFCP PHASE1:Hg19::chr8:133981703..133981711,+#_418c7d621035fe6f76942ddbffea874cp31@TG
3.49e-79FFCP PHASE1:Hg19::chr2:1426812..1426834,+#_418c7d621035fe6f76942ddbffea874cp5@TPO
3.49e-79FFCP PHASE1:Hg19::chr8:133900431..133900436,+#_418c7d621035fe6f76942ddbffea874cp@chr8:133900431..133900436, +










Property "Property value" (as page type) with input value "UBPROP:0000001 "Outpocketings of pharyngeal endoderm that interdigitate with the neural crest derived pharyngeal arches. The pouches later fuse with the surface ectoderm to form the gill slits. Crump et al, 2004.[TAO]" xsd:string" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.