GEISHA 2.0

NCBI Nucleotide Hit

Ensembl Genome Map contig view

5' Sequence

Stage

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Location (click to highlight)

Comments (click to highlight)

7-12

stage 11

13-18

stage 14

stage 16

stage 17

Pharyngeal Arches and Clefts

19-24

stage 19

stage 21

stage 24

Wing Muscles

Probe 2

GEISHA Id Myf5.Ahmed.2006

NCBI Ensembl

Gene Name MYF5 MYF5_CHICK

Aliases myf-5, Myf5 homolog, MYF5, myogenic factor 5, Official

Gene Description myogenic factor 5 Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]

Gene Ontology

NCBI Nucleotide Hit

Ensembl Genome Map contig view

Citation Ahmed MU, Cheng L, Dietrich S. Establishment of the epaxial-hypaxial boundary in the avian myotome. Dev Dyn. 2006 Jul;235(7):1884-94.

Comments Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (NM_001030363).

Complete Sequence

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

19-24

stage 22

stage 24

stage 25

Probe 3

GEISHA Id Myf5.Amthor.2006

NCBI Ensembl

Gene Name MYF5 MYF5_CHICK

Aliases myf-5, Myf5 homolog, MYF5, myogenic factor 5, Official

Gene Description myogenic factor 5 Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]

Gene Ontology

NCBI Nucleotide Hit

Ensembl Genome Map contig view

Citation Amthor H, Otto A, Macharia R, McKinnell I, Patel K. Myostatin imposes reversible quiescence on embryonic muscle precursors. Dev Dyn. 2006 Mar;235(3):672-80.

Comments The following probes were used in this study: MyoD, clone CMD9 1.5-kb full-length fragment (a gift from Professor Bruce Patterson); Pax-3, a 645-bp fragment corresponding to nucleotides 468-1,113 (a gift from Dr. Martin Goulding); Myf-5, a 1.1-kb fragment and Myogenin, a 1.2-kb fragment (both kind gifts from Professor Antony Graham); Pax-7 a 582-bp fragment (a kind gift from Dr. Susanne Dietrich).

Complete Sequence

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

19-22

stage 22

Limb Buds

Wing

Probe 4

GEISHA Id Myf5.Bothe.2006

NCBI Ensembl

Gene Name MYF5 MYF5_CHICK

Aliases myf-5, Myf5 homolog, MYF5, myogenic factor 5, Official

Gene Description myogenic factor 5 Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]

Gene Ontology

NCBI Nucleotide Hit

Ensembl Genome Map contig view

Citation Bothe I, Dietrich S. The molecular setup of the avian head mesoderm and its implication for craniofacial myogenesis. Dev Dyn. 2006 Oct;235(10):2845-60.

Comments Insufficient information provided to verify exact probe sequence. Sequence obtained from NCBI (NM_001030363).

Complete Sequence

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

7-10

stage 10

Probe 5

GEISHA Id MYF5.Bothe.2007

NCBI Ensembl

Gene Name MYF5 MYF5_CHICK

Aliases myf-5, Myf5 homolog, MYF5, myogenic factor 5, Official

Gene Description myogenic factor 5 Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]

Gene Ontology

NCBI Nucleotide Hit

Ensembl Genome Map contig view

Citation Bothe I, Ahmed MU, Winterbottom FL, von Scheven G, Dietrich S. Extrinsic versus intrinsic cues in avian paraxial mesoderm patterning and differentiation. Dev Dyn. 2007 Sep;236(9):2397-409.

Comments Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (NM_001030363).

Complete Sequence

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

13-18

stage 10

Dermatome

19-24

stage 24

Dermatome

Probe 6

GEISHA Id	Myf5.Duprez.2002
	NCBI	Ensembl
Gene Name		MYF5_CHICK
Gene Description		Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]
Gene Ontology		show GO:0001756 somitogenesis IEA GO:0001952 regulation of cell-matrix adhesion IEA GO:0003677 DNA binding IEA GO:0005634 nucleus IEA GO:0006355 regulation of transcription, DNA-dependent IEA GO:0007275 multicellular organismal development IEA GO:0007517 muscle development IEA GO:0007519 skeletal muscle development IEA GO:0030154 cell differentiation IEA GO:0030198 extracellular matrix organization and biogenesis IEA GO:0030528 transcription regulator activity IEA GO:0045449 regulation of transcription IEA GO:0048704 embryonic skeletal morphogenesis IEA
Ensembl Genome Map	contig view
Citation	Duprez, D (2002). Signals regulating muscle formation in the limb during embryonic development. Int J Dev Biol. 2002;46(7):915-25.
Copyright	"Reprinted from Int. J. Dev. Biol., 46, Duprez, D, Signals regulating muscle formation in the limb during embryonic development, 915-25, Copyright (2002), with permission from Copyright © 2002 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_001030363).
Complete Sequence	show ATGGAGGTGATGGACAGCTGCCAGTTCTCCCCATCCGAGCTCTTCTATGACAGCTCCTGCCTGTCGTCCCCTGAGGGCG AGTTCCCTGAGGATTTCGAGCCCAGGGAGCTGCCTCCCTTTGGAGCCCCTGCGCCCACTGAGCCTGCCTGCCCTGAGGA AGAGGAACACGTCCGGGCCCCCAGTGGGCACCACCAGGCCGGCCACTGCCTCATGTGGGCTTGCAAAGCCTGCAAGAGG AAATCCACCACCATGGACCGGCGGAAGGCAGCCACTATGAGGGAGAGGAGGAGGCTGAAGAAAGTGAACCAAGCATTCG AGACCTTGAAGAGGTGCACCACGGCCAACCCCAACCAGAGACTCCCCAAAGTGGAGATCCTGAGGAACGCCATCAGGTA CATCGAAAGCCTCCAGGAGCTCTTGAGGGAACAGGTGGAGAACTACTATCACCTGCCGGGACAGAGCTGCTCCGAGCCC ACCAGCCCCAGCTCCAGCTGCTCCGATGTGATGGCGGACTCGCGCAGCCCGGTCTGGCCGGCGAGAGGCAGCAGCTTCG AGGCGGGCTACTGCCGCGAGATGCCCCACGGCTACGCGACGGAGCAGAGTGGCGCGCTGTCCAGCCTGGACTGCCTCTC CAGCATCGTGGACCGCCTCTCTCCGGCGGAGGAGCCGGGGCTGCCCCTCCGTCACGCCGGCTCCCTCTCGCCAGGCGCC AGCATCGACTCGGGGCCCGGGACGCCCGGCTCGCCGCCGCCCCGACGGACCTACCAGGCGCTATGA

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

19-24

stage 23

Leg Muscles

Wing Muscles

25-30

stage 26

31-44

stage 44

Leg Muscles

Comparison of several probes

Wing Muscles

Probe 7

GEISHA Id MYF5.Kiefer.2001

NCBI Ensembl

Gene Name MYF5 MYF5_CHICK

Aliases myf-5, Myf5 homolog, MYF5, myogenic factor 5, Official

Gene Description myogenic factor 5 Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]

Gene Ontology

NCBI Nucleotide Hit

Ensembl Genome Map contig view

Citation Kiefer JC, Hauschka SD (2001). Myf-5 is transiently expressed in nonmuscle mesoderm and exhibits dynamic regional changes within the presegmented mesoderm and somites I-IV. Dev Biol. 2001 Apr 1;232(1):77-90.

Comments According to the authors, "The reported Myf-5 expression patterns were confirmed with two in situ hybridization probes." The sequences below was obtained from NCBI (NM_001030363) using the primers provided in the paper.

5' Sequence

3' Sequence

Caudal Presegmented Mesoderm

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

1-3

stage 3

Early Mesoderm

Epiblast

Primitive Streak

4-6

stage 5

Early Endoderm

Hensen's Node

Primitive Streak

7-12

stage 7

stage 8

stage 10

stage 12

Presegmented Mesoderm

13-18

stage 13

stage 18

Dermamyotome Lip

Dermomyotome Lip

Dorsomedial Somite

Presegmented Mesoderm

Rostral Presegmented Mesoderm

Probe 8

GEISHA Id Myf5.Noden.2006

NCBI Ensembl

Gene Name MYF5 MYF5_CHICK

Aliases myf-5, Myf5 homolog, MYF5, myogenic factor 5, Official

Gene Description myogenic factor 5 Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]

Gene Ontology

NCBI Nucleotide Hit

Ensembl Genome Map contig view

Citation Noden DM, Francis-West P. The differentiation and morphogenesis of craniofacial muscles. Dev Dyn. 2006 May;235(5):1194-218. Review.

Comments Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (NM_001030363).

Complete Sequence

Pharyngeal Arches and Clefts

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

19-21

stage 21

Probe 9

GEISHA Id	Myf5.Pujades.2002
	NCBI	Ensembl
Gene Name	MYF5	MYF5_CHICK
Aliases	myf-5, Myf5 homolog, MYF5, myogenic factor 5, Official
Gene Description	myogenic factor 5	Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]
Gene Ontology	show GO:0003677 DNA binding IEA GO:0005634 nucleus IEA GO:0006355 regulation of transcription, DNA-dependent IEA GO:0007275 multicellular organismal development IEA GO:0007517 muscle development IEA GO:0007519 skeletal muscle development IEA GO:0030154 cell differentiation IEA GO:0030528 transcription regulator activity IEA	show GO:0001756 somitogenesis IEA GO:0001952 regulation of cell-matrix adhesion IEA GO:0003677 DNA binding IEA GO:0005634 nucleus IEA GO:0006355 regulation of transcription, DNA-dependent IEA GO:0007275 multicellular organismal development IEA GO:0007517 muscle development IEA GO:0007519 skeletal muscle development IEA GO:0030154 cell differentiation IEA GO:0030198 extracellular matrix organization and biogenesis IEA GO:0030528 transcription regulator activity IEA GO:0045449 regulation of transcription IEA GO:0048704 embryonic skeletal morphogenesis IEA
Ensembl Genome Map	contig view
Citation	Pujades C, Guez-Guez B, Dunon D. Melanoma Cell Adhesion Molecule (MCAM) expression in the myogenic lineage during early chick embryonic development. Int J Dev Biol. 2002 Mar;46(2):263-6.
Copyright	"Reprinted from Int. J. Dev. Biol., 46, Pujades C, Guez-Guez B, Dunon D, Melanoma Cell Adhesion Molecule (MCAM) expression in the myogenic lineage during early chick embryonic development, 263-6, Copyright (2002), with permission from Copyright © 2002 UBC Press". All rights reserved.
Comments	According to authors, "Total RNA preparation, RT-PCR and oligonucleotides for amplification of Myf5 cDNA were as described (Montarras et al., 1991)" As access to Montarras et al., 1991 paper was unavailable to verify exact sequence used to synthesize probe, the sequence below was obtained from NCBI (acc # NM_001030363).
Complete Sequence	show ATGGAGGTGATGGACAGCTGCCAGTTCTCCCCATCCGAGCTCTTCTATGACAGCTCCTGCCTGTCGTCCCCTGAGGGCG AGTTCCCTGAGGATTTCGAGCCCAGGGAGCTGCCTCCCTTTGGAGCCCCTGCGCCCACTGAGCCTGCCTGCCCTGAGGA AGAGGAACACGTCCGGGCCCCCAGTGGGCACCACCAGGCCGGCCACTGCCTCATGTGGGCTTGCAAAGCCTGCAAGAGG AAATCCACCACCATGGACCGGCGGAAGGCAGCCACTATGAGGGAGAGGAGGAGGCTGAAGAAAGTGAACCAAGCATTCG AGACCTTGAAGAGGTGCACCACGGCCAACCCCAACCAGAGACTCCCCAAAGTGGAGATCCTGAGGAACGCCATCAGGTA CATCGAAAGCCTCCAGGAGCTCTTGAGGGAACAGGTGGAGAACTACTATCACCTGCCGGGACAGAGCTGCTCCGAGCCC ACCAGCCCCAGCTCCAGCTGCTCCGATGTGATGGCGGACTCGCGCAGCCCGGTCTGGCCGGCGAGAGGCAGCAGCTTCG AGGCGGGCTACTGCCGCGAGATGCCCCACGGCTACGCGACGGAGCAGAGTGGCGCGCTGTCCAGCCTGGACTGCCTCTC CAGCATCGTGGACCGCCTCTCTCCGGCGGAGGAGCCGGGGCTGCCCCTCCGTCACGCCGGCTCCCTCTCGCCAGGCGCC AGCATCGACTCGGGGCCCGGGACGCCCGGCTCGCCGCCGCCCCGACGGACCTACCAGGCGCTATGA

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

7-12

stage 12

13-17

stage 14

stage 17

Probe 10

GEISHA Id Myf5.Reijntjes.2007

NCBI Ensembl

Gene Name MYF5 MYF5_CHICK

Aliases myf-5, Myf5 homolog, MYF5, myogenic factor 5, Official

Gene Description myogenic factor 5 Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]

Gene Ontology

NCBI Nucleotide Hit

Ensembl Genome Map contig view

Citation Reijntjes S, Stricker S, Mankoo BS. A comparative analysis of Meox1 and Meox2 in the developing somites and limbs of the chick embryo. Int J Dev Biol.(2007); 51(8:753-9.

Copyright Reprinted from Int. J. Dev. Biol., 51, Reijntjes S, Stricker S, Mankoo BS, A comparative analysis of Meox1 and Meox2 in the developing somites and limbs of the chick embryo, 753-9, Copyright © 2007 UBC Press, with permission. All rights reserved.

Comments According to authors , "MyoD, Pax3 and Myf5 anti-sense probes were a kind gift of Philippa Francis-West.." As information provided was insufficient to verify exact sequence used to synthesize probe, the sequence below was obtained from NCBI (acc #NM_001030363).

Complete Sequence

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

19-24

stage 22

stage 25

Probe 11

GEISHA Id MYF5.Wilm.2004

NCBI Ensembl

Gene Name MYF5 MYF5_CHICK

Aliases myf-5, Myf5 homolog, MYF5, myogenic factor 5, Official

Gene Description myogenic factor 5 Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]

Gene Ontology

NCBI Nucleotide Hit

Ensembl Genome Map contig view

Citation Wilm B, James RG, Schultheiss TM, Hogan BL (2004). The forkhead genes, Foxc1 and Foxc2, regulate paraxial versus intermediate mesoderm cell fate. Dev Biol. 2004 Jul 1;271(1):176-89.

Comments Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (NM_001030363).

Complete Sequence

Stage

Image (click image to view full size)

Location (click to highlight)

Comments (click to highlight)

31-35

stage 35

Dermomyotome

Probe 12

GEISHA Id Zic1.Rhodes.2006

NCBI Ensembl

Gene Name ZIC1 MYF5_CHICK

Aliases zinc finger protein of the cerebellum 1

Gene Description Zic family member 1 (odd-paired homolog, Drosophila) Myogenic factor 5 (Myf-5). [Source:Uniprot/SWISSPROT;Acc:Q08856]

Gene Ontology

NCBI Nucleotide Hit

NM_204254 show details

Ensembl Genome Map contig view

Citation Sun Rhodes LS, Merzdorf CS. The zic1 gene is expressed in chick somites but not in migratory neural crest. Gene Expr Patterns. 2006 Jun;6(5):539-45. Epub 2006 Jan 31.

Comments Insufficient information provided in publication to verify exact sequence used to synthesize probe. Sequence below was obtained from NCBI (NM_204254).

Complete Sequence