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A chicken embryo gene expression database

	Anatomical Location
	Stage
	Gene Name
	GEISHA ID
	Multiple Parameters

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NANOG
Nanog homeobox

Gene

Official Symbol	NANOG
Official Full Name	Nanog homeobox
CGNC ID	59260
also known as	homeobox protein NANOG\|cNanog\|homeobox transcription factor Nanog
gene type	protein-coding

Genomic Map

	Ensembl ID not known
	NCBI
	UCSC

Sequence Information

Genomic
RNA	NM_001146142
Polypeptide	NP_001139614

Gene Expression

In Situ Hybridization

GEISHA

Orthology

	Entrez Gene	Ensembl Gene	Genetic Phenotypes	MOD
Fruit Fly
Human
Mouse
Xenopus
Zebrafish

Gene Ontology

Molecular Function
Biological Process
Cellular Component

Links to other databases

Entrez Gene	100272166
Ensembl Gene
KEGG	gga:100272166

Entry 1

GEISHA Id	ChEST181g6	Data Source	GEISHA ISH Analysis
Forward cDNA Template Probe	show GGCTAGCACGACAGCTTGCACGCATAAGATACCTACAGCTTCCAGAGCACCTCTGATAGTATCACACAGTTCTCGAGCT CTCCTGTACGGCATCAGTACCAGGCCCCTTGGCATACCCTGGGGACCCAGAATGGTTATGAGACTTAGACCTAAGTATT GTTCTTTCCCTTCCTCCTGTTTTGTCTCATGGGGTTTCTAGGGTCTTGACTCATAGATCCAATTTCTATTCCTTTCTTT TGCCCCTCCTTCTCAATTCCTGCTTTAACTGTTGGTGGGGTCTAGCACCCTGCTATTTCAGGTTTCTTTTCTCTTTAAA GGCATCTCTGTGCATAGCTAACCCTTTGCAAGGGTGTTCTGTGTGTAGACAGGTGAAATTGCATTTATGGAGGGGAATG TGCAATGCCACAGTCAGGAGCAGCAGAGATGGCGAAGATCCATGTTTACTGTCCAAGACCCACTCCGCTGCCTCTTTTG CGGATGATTCTCTGATCTTCACCATGTGTCTTGCAGCCAAAACTTAGAGAAAACTTTTAATTTCTGCAAGAAATACCCT ATTTGTAGCCCAGAGTCTTTCCTGCTGTCTTGCCTTTTTCTGCTGTGACCTCAGTCATCTAGTAAATTCATCTGGGTCC TTTAAATCTCTGAACTGAAAGCCT
Comments	No specific expression detected: stages 10, 12 negative, stages 14-21 had widespread, low-level expression.

no images

Entry 2

GEISHA Id	NANOG.UApcr	Data Source	GEISHA ISH Analysis
Forward cDNA Template Primer	CAGCAGCAGACCTCTCCTTGAC
Reverse cDNA Template Primer	AATTAACCCTCACTAAAGCCAAAGAAGCCCTCATCCTCC	cDNA Template Length	595
Forward cDNA Template Probe	show ACGGATACGGCCCTGCCCATTCCCATAAGTCTGGCCACTGCTGTAAGCCTGGTGTCCACTGGTAACAGCCTGAAGGTTT CTGTTGGCAACAACAGGGAAGCCCTGGTGAAATGTAGGGGTCATATCCAGATACGCAGCTTGATGAAACCCATTCTGTG GTAGATAAATCCCTTTATCCACCCACTGACTCTCTTTCTGGCAACGTTTAAACTTCATTCGTTGGTTCTGAAACCACGT CTTCACCTGCTTGTAGGTGAGCCCCAGAGCAGCAGCCAGCTCCCGGATCTGATGGGGGCTGAGGTACTTCTGGCTCTGA AACCGCTGGTGCAGGGTCTGCAGCTGCTCCTGGGAGAAAGCTGTGCGGCTCTTGGCCTTCCTTGTCCCACTCTCACCTT TATCCTTAACCTTCTGAAAAGTGGGGCGGTGAGATGGGTGGTCTGCAGTAGGGCTAGTGGCAGAGTCTGGGGTATACTG AATGAGTGTCCCAGAGCTGGAAGAAGCTGGAGAGGCATCTGGGTGGCAGGGCGTTTTCTGCTCTGTGGTCAAGGAGAGG TCTGCTGATGANNNACCNCCCATCTCACNNCGCCCCACTTTTCAGAGGTTAAGGATAAAGGTGAGAGTGGGACAGGAAA GCCAAGAGCCGCACGCTTTCTCCAGGAGCGCTGCTGACCCTGCCCCACGTTTCATATCAGAAGTACTACTCCCCCATCC AATACCGGAATTGCGAGTGTCCTTGGTTCTCTTCAACTAGGTTAAAACTAGGTTTATAACTGCTTTG

Stage

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Location (click to highlight)

Comments (click to highlight)

4-6

stage 4

stage 5

stage 6

Area Opaca
Epiblast
Germ Cells/PGCs
Germinal Crescent
extraembryonic ectoderm

7-12

stage 7

stage 11

stage 12

Extraembryonic
Germ Cells/PGCs
Germinal Crescent
Neural Plate/Tube
Unlabeled
Unlabeled Embryonic

13-18

stage 18

Germ Cells/PGCs
Gonad

Ventral view.

19-24

stage 19

stage 21

stage 23

stage 24

Eye
Germ Cells/PGCs
Gonad

Ventral view.

stage 25

Eye
Germ Cells/PGCs
Gonad

Entry 3

GEISHA Id	Nanog.Cañón.2006	Data Source	Publication
Forward cDNA Template Probe	show CTTGCAGGCAGAAGATACCTACAGCTTCCAGAGCACCTCTGATAGTATCACACAGTTCTCGAGCTCTCCTGTACGGCAT CAGTACCAGGCCCCTTGGCATACCCTGGGGACCCAGAATGGTTATGAGACTTAGACCTAAGTATGTTCTTTCCCTTCCT CCTGTTTNGTCTCATGGGGTTTCTAGGGTCTTGACTCATAGATCCAATTTCTATTCCTTTCTTTGCCCCTCCTTCTCAA TTCCTGCTTTAACTGTTGGTGGGGTCTAGCACCCTGCTATTTCAGGTTTCTTTTCTCTTTAAAGGCATCTCTGTGCATA GCTAACCCTTTGCAAGGGTGTTCTGTGTGTAGACAGGTGAAATTGCATTTATGGAGGGGAATGTGCAATGCCACAGTCA GGAGCAGCAGAGATGGCGAAGATCCATGTTTACTGTCCAAGACCCACTCCGCTGCCTCTTTTGCGGATGATTCTCTGAT CTTCACCATGTGTCTTGCAGCCAAAACTTAGAGAAAACTTTTAATTTCTGCAAGAAATACCCTATTTGTAGCCCAGAGT CTTTCCTGCTGTCTTGCCTTTTTCTGCTGTGACCTCAGTCATCTAGTAAATTCATCTGGGTCCTTTAAATCTCTGAACT GAAAGCCT
Citation	Cañón S, Herranz C, Manzanares M. (2006) Germ cell restricted expression of chick Nanog. Dev Dyn. 2006 Oct;235(10):2889-94.
Copyright	Copyright © 2006 Wiley-Liss, Inc.
Comments	Authors state: Clone ChEST181g6 (accession no. BU454887) was selected for generating a digoxigenin-labeled riboprobe, as further sequencing of this clone showed that it contained a 625-bp fragment that include the last residues of the coding sequence of Nanog.

Stage

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Location (click to highlight)

Comments (click to highlight)

1-3

stage 1

stage 3

Epiblast

4-6

stage 5

stage 6

Area Opaca
Area Pellucida
Germinal Crescent

7-12

stage 7

stage 8

stage 10

stage 12

Area Opaca
Area Pellucida
Blood Vessels
Germinal Crescent

Primordial Germ Cells (PGCs), vitelline vessels
vitelline vessels, Primordial Germ Cells (PGCs)
vitelline vessels, primordial germ cells (PGCs)

19-20

stage 20

Gonad

primordial germ cells and genital ridges

Entry 4

GEISHA Id	Nanog.Lavial.2007	Data Source	Publication
Complete cDNA Template Probe	show `CAGCAGACCTCTCCTTGACCACAGAGCAGAAAACGCCCTGCCACCCAGATGCCTCTCCAGCTTCTTCCAGCTCTGGGAC ACTCATTCAGTATACCCCAGACTCTGCCACTAGCCCTACTGCAGACCACCCATCTCACCGCCCCACTTTTCAGAAGGTT AAGGATAAAGGTGAGAGTGGGACAAGGAA`
Citation	Lavial F, Acloque H, Bertocchini F, Macleod DJ, Boast S, Bachelard E, Montillet G, Thenot S, Sang HM, Stern CD, Samarut J, Pain B (2007). The Oct4 homologue PouV and Nanog regulate pluripotency in chicken embryonic stem cells. Development. 2007 Oct;134(19):3549-63.
Copyright	Published by The Company of Biologists 2007
Comments	According to the authors, "Oligonucleotides (Proligo) were designed using Primer 3 software (http://frodo.wi.mit.edu/cgi-bin/primer3/primer3_www.cgi) and are listed in Table 1." The sequence below was obtained from NCBI (DQ867025) using the information provided.

Stage

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Location (click to highlight)

Comments (click to highlight)

X-XIV

stage XI

stage XII

stage XIV

Area Opaca
Area Pellucida
Epiblast

1-3

stage 3

Area Pellucida
Epiblast

Area Pellucida Epiblast

4-6

stage 4

stage 5

stage 6

Germinal Crescent
Headfold
Neural Plate/Tube

7-8

stage 7

stage 8

Germinal Crescent
Neural Plate/Tube

Entry 5

GEISHA Id	NANOG.Han.2018	Data Source	Publication
Complete cDNA Template Probe	show CAGCAGACCTCTCCTTGACCACAGAGCAGAAAACGCCCTGCCACCCAGATGCCTCTCCAGCTTCTTCCAGCTCTGGGAC ACTCATTCAGTATACCCCAGACTCTGCCACTAGCCCTACTGCAGACCACCCATCTCACCGCCCCACTTTTCAGAAGGTT AAGGATAAAGGTGAGAGTGGGACAAGGAAGGCCAAGAGCCGCACAGCTTTCTCCCAGGAGCAGCTGCAGACCCTGCACC AGCGGTTTCAGAGCCAGAAGTACCTCAGCCCCCATCAGATCCGGGAGCTGGCTGCTGCTCTGGGGCTCACCTACAAGCA GGTGAAGACGTGGTTTCAGAACCAACGAATGAAGTTTAAACGTTGCCAGAAAGAGAGTCAGTGGGTGGATAAAGGGATT TATCTACCACAGAATGGGTTTCATCAAGCTGCGTATCTGGATATGACCCCTACATTTCACCAGGGCTTCCCTGTTGTTG CCAACAGAAACCTTCAGGCTGTGACCAGTGCACACCAGGCTTACAGCAGTGGCCAGACTTATGGGAATGGGCAGGGCCT GTATCCGTTCATGGCTGTGGAGGATGAGGGCTT
Citation	Jae Yong Han, Hyo Gun Lee, Young Sun Hwang, Hyung Chul Lee, Sang Kyung Kim, Deivendran Rengaraj. Expression of transcription factors during area pellucida formation in intrauterine chicken embryos. Int J Dev Biol. 2018;62(4-5):341-345. DOI: 10.1387/ijdb.170255jh.
Copyright	Copyright © UPV/EHU Press
Comments	The complete cDNA template sequence was obtained from the information from the publication as described in Han et al. 2018.

Stage

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Location (click to highlight)

Comments (click to highlight)

1-3

stage 3

Area Pellucida

4-6

stage 4

stage 5

stage 6

Area Opaca
Area Pellucida

all

Entry 6

GEISHA Id	NANOG.Trevers.2023	Data Source	GEISHA ISH Analysis
Complete cDNA Template Probe	show GTATCTCCGTGCAGTAGGCGCGTATGCAACCAGCTCACCGCCAGCAACGGCTGGAGGTGCCGTCCCGACCATGAGCGCT CACCTGGCCATGCCGTCCTACGGCTCTGTTAGGTGCGGACACTACTACTGGCCCTCTCCGGGCAGCATGGATAGCGCGT CTGCCGCGGAAGCTCCAGCAGCAGACCTCTCCTTGACCACAGAGCAGAAAACGCCCTGCCACCCAGATGCCTCTCCAGC TTCTTCCAGCTCTGGGACACTCATTCAGTATACCCCAGACTCTGCCACTAGCCCTACTGCAGACCACCCATCTCACCGC CCCACTTTTCAGAAGGTTAAGGATAAAGGTGAGAGTGGGACAAGGAAGGCCAAGAGCCGCACAGCTTTCTCCCAGGAGC AGCTGCAGACCCTGCACCAGCGGTTTCAGAGCCAGAAGTACCTCAGCCCCCATCAGATCCGGGAGCTGGCTGCTGCTCT GGGGCTCACCTACAAGCAGGTGAAGACGTGGTTTCAGAACCAACGAATGAAGTTTAAACGTTGCCAGAAAGAGAGTCAG TGGGTGGATAAAGGGATTTATCTACCACAGAATGGGTTTCATCAAGCTGCGTATCTGGATATGACCCCTACATTTCACC AGGGCTTCCCTGTTGTTGCCAACAGAAACCTTCAGGCTGTGACCAGTGCACACCAGGCTTACAGCAGTGGCCAGACTTA TGGGAATGGGCAGGGCCTGTATCCGTTCATGGCTGTGGAGGATGAGGGCTTCTTTGGAAAAGGTGGAACAAGCTGCAAC ACCCAGCAGGCCATGGGTTTATTAAGTCAACAGATGAACTTCTATCATGGCTACTCTACCAATGTGGATTATGACAGCT TGCAGGCAGAAGATACCTACAGCTTCCAGAGCACCTCTGATAGTATCACACAGTTCTCGAGCTCTCCTGTACGGCATCA GTACCAGGCCCCTTGGCATACCCTGGGGACCCAGAATGGTTATGAGACTTAGACCTAAGTATTGTTCTTTCCCTTCCTC CTGTTTTGTCTCATGGGGTTTCTAGGGTCTTGACTCATAGATCCAATTTCTATTCCTTTCTTTTGCCCCTCCTTCTCAA TTCCTGCTTTAACTGTTGGTGGGGTCTAGCACCCTGCTATTTCAGGTTTCTTTTCTCTTTAAAGGCATCTCTGTGCATA GCTAACCCTTTGCAAGGGTGTTCTGTGTGTAGACAGGTGAAATTGCATTTATGGAGGGGAATGTGCAATGCCACAGTCA GGAGCAGCAGAGATGGCGAAGATCCATGTTTACTGTCCAAGACCCACTCCGCTGCCTCTTTTGCGGATGATTCTCTGAT CTTCACCATGTGTCTTGCAGCCAAAACTTAGAGAAAACTTTTAATTTCTGCAAGAAATACCCTATTTGTAGCCCAGAGT CTTTCCTGCTGTCTTGCCTTTTTCTGCTGTGACCTCAGTCATCTAGTAAATTCATCTGGGTCCTTTAAATCTCTGAACT GAAAGCCTAAATATCATCTTATCTTGGATGGTTTGATCCAGTTACTCTGTCTTTCCACCTGGAGAGGTCAGTACCTGCC TACCCTTTGTCTCCTGCCTTCCTGTGTTCGTAAGGCTGTTTAAAGAACAGGAGGAGAAAAGAGAAGTTGGAGAGAATGT TGTCTGTACCTGATGTGGAAATGTTTAAAACGATTTCCAAAGCTGATGGATGCTTTGTGTCTGTCAAATAACTGACGAT CAATCTCTGGAACTATTTGTAACAATTTAAATCTTGTCTTCCTTAATCTCTCTGCTGAGAAAATGATAGCTTGTCCCAA TCTGAATATTGCAGCAGATGGTACACCAAAATGCCATTGCTGGAAATGTGAGTAGTGGCTATATTTAGCCATCTTCTGA GTGTTGAGAAATAGTTTGCTTATCTGTATATCAGGATTCACTAGCAATTTGTGAACACAGTGTCAATACATGGGCAGCT TTCTCAGAGGTAGAGAGTACGCAAAGGTAAAGGGCTTGGTTACATTAAAGATTGTTTCATGGTTAGTTATTCTGAAACC TGAATGTCAGGGAGGAAAACCCTGTTGGATAGTAGTGGAGTTGGCATCCAAGGGGCTAGAGCAGGATGTTTCCCTAATC TCTTGTCTAATCTCAGTTTTAAGATAGCAAGCTAATGTTTTTATCCCATCTCCAGTGCTTAGTTGGATCTTTTCCATAT TCTCCTGCTGAAAGGTATACCAGCTACCTCTTGGGGTAGCCATTCTGGAGGAGATGGCAAGTTCAGAGAAACCTAGATA GACAATCAGAGGATGAAAATGGCAATTAATGTTTTGATTTTCTTTTTCAAAAGAACTGAATCATCCCTTTCAGGATGGA GATTACTAGAAGTCAGCAACTGCCTGTGCAAAACTGGATCTTTAAGTAGTGAGATTGGAGAGTCCAGTCTGCCACTGCC CAAGAATACACAATGTCTTGAGCTGGCAAGAGCAAATAAATGATAAAAGCATAAATAATTTTTTTCACTAATGCGCAGT TTGTGCTGTAATTCTGTATTTTAATGTATGTGCAAGGATTATGTGTCACAGTTGAGCTTTCACTACAAAGATGGATGCT TGCTGCTGTTCTCGCAGTGATCATGGCCATGTTTTATGGCATACATGTGTTGTCTACTGCTTTACTTCTGCTTGATGTT TATATAGACTCGCTTGAATTGAAAATAAATGACTTTATTTTAATGCTGAAA
Comments	Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (NM_001146142).