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A chicken embryo gene expression database

	Anatomical Location
	Stage
	Gene Name
	GEISHA ID
	Multiple Parameters

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RUNX1
runt-related transcription factor 1

Gene

Official Symbol	RUNX1
Official Full Name	runt-related transcription factor 1
CGNC ID	49673
also known as	runt-related transcription factor 1\|ch-runtB2, ch-runtB2 , RUNX1, AML-1, CBFA2, PEBP2*B
gene type	protein-coding

Genomic Map

	Ensembl
	NCBI
	UCSC

Sequence Information

Genomic
RNA	NM_205227
Polypeptide	NP_990558

Gene Expression

In Situ Hybridization

GEISHA

Orthology

	Entrez Gene	Ensembl Gene	Genetic Phenotypes	MOD
Fruit Fly	33059			FBgn0003300
Human
Mouse	12394	ENSMUSG00000022952	All phenotypic alleles (43):Targeted, knock-out(5) Targeted, other(38)	MGI:99852
Xenopus	100485449, 379657			483163
Zebrafish	58126		ZDB-GENE-000605-1	ZFIN:ZDB-GENE-000605-1

Gene Ontology

Molecular Function
Biological Process
Cellular Component

Links to other databases

Entrez Gene	396152
Ensembl Gene	ENSGALG00000016022
KEGG	gga:396152

Entry 1

GEISHA Id	RUNX1.UApcr	Data Source	GEISHA ISH Analysis
Forward cDNA Template Primer	GATGGCTGGAAACGATGAG
Reverse cDNA Template Primer	ATTAACCCTCACTAAAGGTTATGGGATACCTACGGGC	cDNA Template Length	945
Forward cDNA Template Probe	show AAGCACGGTTAGTCACTGGCCCACGACTACTNAAAATGCATTCAGTATGGCCTCCAAACCGCTTCCTCTAGCCTTGCCG TGGGTACCCATGTTGGTTGGGGAGTTGCTGTGGCTNCCNTNTGCCTCAACCACATCNCTTNAGTTGGGAAGGTTGGGGT TGAGGAGTGTCGATCCTGTGGAAGCATTGGTGCAAGGGGGGTGGATGCGCGGGGGGGACCGGTCTCCTCCTGAGATCAT GGAGAACTGATAGGACCCGGCGGAGGTTCCGTAGTANAGGTGGTACGAAGGTGAGCTGGTCTGGAATGGGCTGCCTTGG GCCTGAGAGGAACCGGGATATGGAGGTGGGAGGTAAGTGTGGTATCTGGTGGCCGTGGACATAGCAGACATACCGATCC CTATCCCCGAACTGACGGGTGTTGGCGTGTAGGTGAACGCTCCCGGGTAGTGCATCCGAGGATCAGAAATGGAAGGGAG CGCGGANAAGGAGCGGTCGATCCCCACTCTGGGGTCACTGAATGCCGTCAAGTCAGAAGCACCTGAGAGGCGGCTGGAA AGCTCTGCGGTGAGGGACGTCATGCCGCTGGCCCTGCCAGGCGATATCGGCGTGGCAGGGTGCACCGAGGGAGTCNCGA TGGANCCCAGGTACTGGTAGGACTGGTCGTANGACCATGGCGGGGACGGCTGCACTTGCCTCGTGTTTCTGGGTTCNCG TGGTCCATCCACCGTTATCTTGATGGCTCTGTGGTACGTGGCTACTTGTGGCGGGTTTGTGAAAACTGTGATAGTCANT GTGAANCTTTTCCCTCTTCCACTTCTACCCACAAATCTGANGTCGTTGAACCTC

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

4-6

stage 4

stage 5

stage 6

Blood Islands
Unlabeled

7-12

stage 8

stage 9

stage 11

Blood
Blood Islands

13-18

stage 13

stage 15

stage 16

Blood
Blood Islands
Forebrain
Hindbrain
Midbrain
Spinal Ganglia and Nerves
Splanchnic Mesoderm

19-24

stage 20

stage 21

Allantois
Aorta
Blood
Cranial Ganglia
Eye
Leg AER
Lung
Mesonephros
Pharyngeal Arches and Clefts
Spinal Cord
Spinal Ganglia and Nerves
Stomach
Wing Mesenchyme

Labeling along ventral portion of Aorta and in underlying mesenchyme; the AGM.

25-27

stage 25

stage 27

Cranial Ganglia
Leg Mesenchyme
Pharyngeal Arches and Clefts
Spinal Cord
Spinal Ganglia and Nerves
Wing Mesenchyme

Entry 2

GEISHA Id	Runx1.Bollerot.2005	Data Source	Publication
Complete cDNA Template Probe	show ACAAAAGGCACTGGGATAAAGCAGTGTGATGGCTGGGCAGAGGGTTGTAACCATGACCGTTCTTCATTTTTCACCTCCC AAGGTAGAAGAAATCATATATTCCTTCACTGTGAAGAGAAAGTGAGTTTTAAAGAGGAAACAATGGCTTCAAACAGCGT ATTTGATTCACTTCCTTCTTACCAGCACTTCTTGAGAGATACCAGCACCAGCCGCCGCTTCACGCCGCCCTCCACCGCG CTGAGCCCGGGGAAGATGAGCGAGCCGCTGCCGCTGCCCGGCGCCGAGCACAGCGGAGCGCTGGCGGGGAAGCTGCGCG CCGCCGACCGCAGCATGGTGGAGGTCCTGGCGGACCACCCCGGGGAGCTGGTGCGCACCGACAGCCCCAACTTCCTCTG CTCCGTGCTGCCCACCCACTGGCGCTGCAACAAGACGCTGCCCATCGCCTTCAAGGTGGTGGCCTTGGGAGACGTACCC GATGGGACGCTGGTCACGGTGATGGCTGGAAACGATGAGAACTACTCTGCAGAGCTCAGAAATGCGACGGCTGCCATGA AAAACCAAGTGGCGAGGTTCAACGACCTCAGATTTGTGGGTAGAAGTGGAAGAGGGAAAAGCTTCACACTGACTATCAC AGTTTTCACAAACCCGCCACAAGTAGCCACGTACCACAGAGCCATCAAGATAACGGTGGATGGACCACGCGAACCCAGA AACACGAGGCAAGTGCAGCCGTCCCCGCCATGGTCCTACGACCAGTCCTACCAGTACCTGGGCTCCATCGCGACTCCCT CGGTGCACCCTGCCACGCCGATATCGCCTGGCAGGGCCAGCGGCATGACATCCCTCACCGCAGAGCTTTCCAGCCGCCT CTCAGGTGCTTCTGACTTGACGGCATTCAGTGACCCCAGAGTGGGGATCGACCGCTCCTTCTCCGCGCTCCCTTCCATT TCTGATCCTCGGATGCACTACCCGGGAGCGTTCACCTACACGCCAACACCCGTCAGTTCGGGGATAGGGATCGGTATGT CTGCTATGTCCACGGCCACCAGATACCACACTTACCTCCCACCTCCATATCCCGGTTCCTCTCAGGCCCAAGGCAGCCC ATTCCAGACCAGCTCACCTTCGTACCACCTCTACTACGGAACCTCCGCCGGGTCCTATCAGTTCTCCATGATCTCAGGA GGAGACCGGTCCCCCCCGCGCATCCACCCCCCTTGCACCAATGCTTCCACAGGATCGACACTCCTCAACCCCAACCTTC CCAACCAAAGCGATGTGGTTGAGGCAGAAGGGAGCCACAGCAACTCCCCAACCAACATGGGTACCACGGCAAGGCTAGA GGAAGCGGTTTGGAGGCCATACTGAATGCATTTTAAGTAGTCGTGGGCCAGGACTAACGTGCTTTCAATTTACCGATGC CCGTAGGTATCCCATAAACACCTGTCTTGCTTGTGGGCCCTCGATGTTCATACATCACTTCCAGAAGCAAACTCTCCAG AAGTCAGCGGTCCCAAGAGCAGTGGCGTGTGTTGGGCCAGCTGCGGGGCTGGTGAAGCGATGCCAGCGCCAGGCAAGGT ACCCCCCCGGGGGGCTGAGCTTCTGGAAAGGAGGACATTCAGGTTGGTGGCCTGTAGGTAGTGAGGGTGGGTAGGAAGA TATCCAGGCTGTTCCCGGGCCTGTGGCTTTCAAACATGCCCAGGTTTGAAGGTCTTCACAGCCCTAAAGGGAGTTTCAG TTCACTTCTGTTTTTAAGACTTAAGACCTAACAGAAACTTAACGAGTTTACTGCATCTTATGGACGTGTTAACTATAAG GAAGTATAGGAAGATTCCCAGAGGGAAACTGTGAA
Citation	Bollerot K, Romero S, Dunon D, Jaffredo T. Core binding factor in the early avian embryo: cloning of Cbfbeta and combinatorial expression patterns with Runx1. Gene Expr Patterns. 2005 Dec;6(1):29-39. Epub 2005 Jul 19.
Copyright	Copyright © 2005 Elsevier B.V. All rights reserved.
Comments	According to the authors, "To ensure the specific detection of Runx1 transcripts over Runx2 and Runx3, we have used two different probes. They encompass, respectively, the first 750 bp and the last 655 bp of the chick Runx1 coding sequence, the details of which will be given elsewhere (Bollerot and Jaffredo, in preparation). All the Runx1 patterns except those of the YS obtained with the 5′ end probe were established with the two probes. For each structures, the two patterns were similar." As information provided was insufficient to verify exact sequence used to synthesize probe,the sequence below was obtained from NCBI (NM_205227).

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

4-6

stage 4

stage 5

stage 6

Area Opaca
Blood Islands

Figure 2 includes stages 2+, 4, and 5 and compares Runx1 expression to Cbfβ.
Figure 3 compares Runx1 expression to Cbfβ.
Hemangioblasts

7-12

stage 9

Blood Islands

Figure 4 compares Runx1 expression to Cbfβ and Ets-1.

13-18

stage 13

stage 14

stage 18

Blood
Blood Islands
Cranial Ganglia
Endoderm
Lung
Neural Plate/Tube
Splanchnic Mesoderm

Acousticofacialis Ganglia
Figure 5 compares Runx1 expression to Cbfβ.
Figure 6 compares Runx1 expression to Cbfβ, PU.1 and c-Myb.
Figure 7 compares Runx1 expression to Cbfβ.
Figure 8 compares Runx1 expression to Cbfβ, VE-Cadherin, and Ets-1.
Mesenchyme ventral to the Aorta
Neuroepithelium
Trigeminal Ganglia

Entry 3

GEISHA Id	RUNX-1.Jaffredo.2005	Data Source	Publication
Complete cDNA Template Probe	show ACAAAAGGCACTGGGATAAAGCAGTGTGATGGCTGGGCAGAGGGTTGTAACCATGACCGTTCTTCATTTTTCACCTCCC AAGGTAGAAGAAATCATATATTCCTTCACTGTGAAGAGAAAGTGAGTTTTAAAGAGGAAACAATGGCTTCAAACAGCGT ATTTGATTCACTTCCTTCTTACCAGCACTTCTTGAGAGATACCAGCACCAGCCGCCGCTTCACGCCGCCCTCCACCGCG CTGAGCCCGGGGAAGATGAGCGAGCCGCTGCCGCTGCCCGGCGCCGAGCACAGCGGAGCGCTGGCGGGGAAGCTGCGCG CCGCCGACCGCAGCATGGTGGAGGTCCTGGCGGACCACCCCGGGGAGCTGGTGCGCACCGACAGCCCCAACTTCCTCTG CTCCGTGCTGCCCACCCACTGGCGCTGCAACAAGACGCTGCCCATCGCCTTCAAGGTGGTGGCCTTGGGAGACGTACCC GATGGGACGCTGGTCACGGTGATGGCTGGAAACGATGAGAACTACTCTGCAGAGCTCAGAAATGCGACGGCTGCCATGA AAAACCAAGTGGCGAGGTTCAACGACCTCAGATTTGTGGGTAGAAGTGGAAGAGGGAAAAGCTTCACACTGACTATCAC AGTTTTCACAAACCCGCCACAAGTAGCCACGTACCACAGAGCCATCAAGATAACGGTGGATGGACCACGCGAACCCAGA AACACGAGGCAAGTGCAGCCGTCCCCGCCATGGTCCTACGACCAGTCCTACCAGTACCTGGGCTCCATCGCGACTCCCT CGGTGCACCCTGCCACGCCGATATCGCCTGGCAGGGCCAGCGGCATGACATCCCTCACCGCAGAGCTTTCCAGCCGCCT CTCAGGTGCTTCTGACTTGACGGCATTCAGTGACCCCAGAGTGGGGATCGACCGCTCCTTCTCCGCGCTCCCTTCCATT TCTGATCCTCGGATGCACTACCCGGGAGCGTTCACCTACACGCCAACACCCGTCAGTTCGGGGATAGGGATCGGTATGT CTGCTATGTCCACGGCCACCAGATACCACACTTACCTCCCACCTCCATATCCCGGTTCCTCTCAGGCCCAAGGCAGCCC ATTCCAGACCAGCTCACCTTCGTACCACCTCTACTACGGAACCTCCGCCGGGTCCTATCAGTTCTCCATGATCTCAGGA GGAGACCGGTCCCCCCCGCGCATCCACCCCCCTTGCACCAATGCTTCCACAGGATCGACACTCCTCAACCCCAACCTTC CCAACCAAAGCGATGTGGTTGAGGCAGAAGGGAGCCACAGCAACTCCCCAACCAACATGGGTACCACGGCAAGGCTAGA GGAAGCGGTTTGGAGGCCATACTGAATGCATTTTAAGTAGTCGTGGGCCAGGACTAACGTGCTTTCAATTTACCGATGC CCGTAGGTATCCCATAAACACCTGTCTTGCTTGTGGGCCCTCGATGTTCATACATCACTTCCAGAAGCAAACTCTCCAG AAGTCAGCGGTCCCAAGAGCAGTGGCGTGTGTTGGGCCAGCTGCGGGGCTGGTGAAGCGATGCCAGCGCCAGGCAAGGT ACCCCCCCGGGGGGCTGAGCTTCTGGAAAGGAGGACATTCAGGTTGGTGGCCTGTAGGTAGTGAGGGTGGGTAGGAAGA TATCCAGGCTGTTCCCGGGCCTGTGGCTTTCAAACATGCCCAGGTTTGAAGGTCTTCACAGCCCTAAAGGGAGTTTCAG TTCACTTCTGTTTTTAAGACTTAAGACCTAACAGAAACTTAACGAGTTTACTGCATCTTATGGACGTGTTAACTATAAG GAAGTATAGGAAGATTCCCAGAGGGAAACTGTGAA
Citation	Jaffredo T, Bollerot K, Sugiyama D, Gautier R, Drevon C (2005). Tracing the hemangioblast during embryogenesis: developmental relationships between endothelial and hematopoietic cells. Int J Dev Biol. 2005;49(2-3):269-77.
Copyright	"Reprinted from Int. J. Dev. Biol., 49,Jaffredo T, Bollerot K, Sugiyama D, Gautier R, Drevon C , Tracing the hemangioblast during embryogenesis: developmental relationships between endothelial and hematopoietic cells, 269-77, Copyright (2005), with permission from Copyright © 2005 UBC Press". All rights reserved.
Comments	Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (acc # NM_205227.1).