Expression Table

Gene Name: her1
Description: DNA binding
Key: I = Interpolated; X = Not Detected; ? = Inconsistent data; ! = Expressed but no region
Table built from ZFIN data (http://zfin.org/zf_info/downloads.html): Tue Dec 4 14:01:03 PST 2007

her1

Stage

Hours

ZFIN expression range

germ ring

presumptive segmental plate

mesoderm

lateral mesoderm

paraxial mesoderm

segmental plate

tail bud

somite

whole organism

unspecified

Zygote

1-cell

Cleavage

2-cell

0.75

4-cell

1.0

8-cell

1.25

16-cell

1.5

32-cell

1.75

64-cell

2.0

Blastula

124-cell

2.25

256-cell

2.5

512-cell

2.75

1k-cell

3.0

High

3.33

Oblong

3.66

Sphere

4.0

Dome

4.33

30% epiboly

4.66

Gastrula

50%-epiboly

5.25

Germ-ring

5.66

Shield

6.0

75% epiboly stage

8.0

90% epiboly

9.0

bud stage

10.0

Segmentation

1-4 somites

10.33

5-9 somites

11.66

10-13 somites

14.0

14-19 somites

16.0

20-25 somites

19.0

26+ somites

22.0

Pharyngula

Prim-5

24.0

Prim-15

30.0

Prim-25

36.0

High-pec

42.0

Hatching

Long-pec

48.0

Pec-fin

60.0

Literature Evidence

1. Mutant embryo and in-situ hybridization (or Q-PCR) showed the downstream target genes are affected
2. Overexpression of specific genes and in-situ hybridization (or Q-PCR) showed the downstream target genes are affected
3. Morpholino knock-down the expression of specific gene and in-situ hybridization (or Q-PCR) showed the downstream target genes are affected
4. The interaction sites of the input to downstream target genes have been identified by isolated the module and reporter assay (CAT, GFP, beta-galactosidase, leciferase or Q-PCR assay etc.)
5. The interaction sites of the input to downstream target genes have been identified by coinject the Morpholino or over-expression the genes for reporter assay (CAT, GFP, beta-galactosidase, leciferase or Q-PCR assay etc.)
6. The interaction sites of the input to downstream target genes have been identified by mutation the binding sites and reporter assay (CAT, GFP, beta-galactosidase, leciferase or Q-PCR assay etc.)

Evidence for Interaction Near the end of gastrulation, her1 is expressed in tail bud cells and in stripes in the presomitic mesoderm of wild-type and ntl- embryos.

Target Gene her1

Upstream Gene ntl

Interaction Type enhance

Altered model mutant embryos

Time of Interaction in evidence 10

Location of Interaction in evidence presomitic mesoderm

Evidence for Direct 1

Binding Site Sequence

Location of Site

Last Author Charles B. Kimmel

Journal Development

Year 2002

Vol 129

Start Page 3311

Evidence for Interaction Near the end of gastrulation, her1 is expressed in tail bud cells and in stripes in the presomitic mesoderm of wild-type and ntl- embryos, and is expressed in tail bud cells and weakly in scattered presomitic cells in spt- embryos. In contrast, her1 is no

Target Gene her1

Upstream Gene ntl

Interaction Type enhance

Altered model mutant embryos

Time of Interaction in evidence 10

Location of Interaction in evidence presomitic mesoderm

Evidence for Direct 1

Binding Site Sequence

Location of Site

Last Author Charles B. Kimmel

Journal Development

Year 2002

Vol 129

Start Page 3311

Evidence for Interaction Near the end of gastrulation, her1 is expressed in tail bud cells and weakly in scattered presomitic cells in spt- embryos.

Target Gene her1

Upstream Gene tbx16

Interaction Type enhance

Altered model mutant embryos

Time of Interaction in evidence 10

Location of Interaction in evidence presomitic mesoderm

Evidence for Direct 1

Binding Site Sequence

Location of Site

Last Author Charles B. Kimmel

Journal Development

Year 2002

Vol 129

Start Page 3311

Evidence for Interaction her1 expression in the presomitic mesoderm is absent in tbx16 mutant.

Target Gene her1

Upstream Gene tbx16

Interaction Type enhance

Altered model mutant embryos

Time of Interaction in evidence 10

Location of Interaction in evidence presomitic mesoderm

Evidence for Direct 1

Binding Site Sequence

Location of Site

Last Author Charles B. Kimmel

Journal Development

Year 2002

Vol 129

Start Page 3311

Evidence for Interaction overexpression of gadd45 genes reduced the expression of segmentation genes her1.

Target Gene her1

Upstream Gene gadd45b

Interaction Type repress

Altered model overexpression

Time of Interaction in evidence 11.66

Location of Interaction in evidence somite

Evidence for Direct 1

Binding Site Sequence

Location of Site

Last Author Igor B. Dawid

Journal PNAS

Year 2004

Vol 102

Start Page 361

Evidence for Interaction In her1 morphants , myoD expression is slightly more diffuse in anterior somites at 8-10 somite stage.

Target Gene myod

Upstream Gene her1

Interaction Type repress

Altered model MASO

Time of Interaction in evidence 11.66

Location of Interaction in evidence somite

Evidence for Direct 1

Binding Site Sequence

Location of Site

Last Author Martin Gajewski

Journal Developmental Biology

Year 2006

Vol 293

Start Page 242

Evidence for Interaction Injection of dlcMOs resulted in a dramatic decrease in her1 expression levels throughout the PSM of 10 somite embryos.

Target Gene her1

Upstream Gene dlc

Interaction Type enhance

Altered model MASO

Time of Interaction in evidence 14

Location of Interaction in evidence somite

Evidence for Direct 3

Binding Site Sequence

Location of Site

Last Author

Journal Developmental Biology

Year 2005

Vol 280

Start Page 133

Evidence for Interaction overexpression of gadd45 genes reduced the expression of segmentation genes her1.

Target Gene her1

Upstream Gene gadd45b

Interaction Type repress

Altered model overexpression

Time of Interaction in evidence 14

Location of Interaction in evidence somite

Evidence for Direct 2

Binding Site Sequence

Location of Site

Last Author Igor B. Dawid

Journal PNAS

Year 2004

Vol 102

Start Page 361

Evidence for Interaction overexpression of gadd45 genes affects somite segmentation. Expression of segmentation genes (mesp-a, her1, and MyoD) was severely reduced in the injected side ,whereas ntl expression was not changed.

Target Gene her1

Upstream Gene gadd45b

Interaction Type repress

Altered model overexpression

Time of Interaction in evidence 14

Location of Interaction in evidence somite

Evidence for Direct 2

Binding Site Sequence

Location of Site

Last Author Igor B. Dawid

Journal PNAS

Year 2004

Vol 102

Start Page 361

Evidence for Interaction Injection of her7MOs had caused widespread, high-level her1 expression throughout the PSM of 10 somite embryos.

Target Gene her1

Upstream Gene her7

Interaction Type repress

Altered model MASO

Time of Interaction in evidence 14

Location of Interaction in evidence somite

Evidence for Direct 3

Binding Site Sequence

Location of Site

Last Author

Journal Developmental Biology

Year 2005

Vol 280

Start Page 133

Evidence for Interaction entire margin except for a dorsal gap in wild type, but is not expressed in MZoep mutants.

Target Gene her1

Upstream Gene oep

Interaction Type enhance

Altered model mutant embryos

Time of Interaction in evidence 5.25

Location of Interaction in evidence margin

Evidence for Direct 1

Binding Site Sequence

Location of Site

Last Author Schier, A. F.

Journal Dev Biol

Year 2007

Vol 304

Start Page 525

Evidence for Interaction	Near the end of gastrulation, her1 is expressed in tail bud cells and in stripes in the presomitic mesoderm of wild-type and ntl- embryos.
Target Gene	her1
Upstream Gene	ntl
Interaction Type	enhance
Altered model	mutant embryos
Time of Interaction in evidence	10
Location of Interaction in evidence	presomitic mesoderm
Evidence for Direct	1
Binding Site Sequence
Location of Site
Last Author	Charles B. Kimmel
Journal	Development
Year	2002
Vol	129
Start Page	3311

Evidence for Interaction	her1 expression in the presomitic mesoderm is absent in tbx16 mutant.
Target Gene	her1
Upstream Gene	tbx16
Interaction Type	enhance
Altered model	mutant embryos
Time of Interaction in evidence	10
Location of Interaction in evidence	presomitic mesoderm
Evidence for Direct	1
Binding Site Sequence
Location of Site
Last Author	Charles B. Kimmel
Journal	Development
Year	2002
Vol	129
Start Page	3311

Evidence for Interaction	overexpression of gadd45 genes reduced the expression of segmentation genes her1.
Target Gene	her1
Upstream Gene	gadd45b
Interaction Type	repress
Altered model	overexpression
Time of Interaction in evidence	11.66
Location of Interaction in evidence	somite
Evidence for Direct	1
Binding Site Sequence
Location of Site
Last Author	Igor B. Dawid
Journal	PNAS
Year	2004
Vol	102
Start Page	361

Evidence for Interaction	In her1 morphants , myoD expression is slightly more diffuse in anterior somites at 8-10 somite stage.
Target Gene	myod
Upstream Gene	her1
Interaction Type	repress
Altered model	MASO
Time of Interaction in evidence	11.66
Location of Interaction in evidence	somite
Evidence for Direct	1
Binding Site Sequence
Location of Site
Last Author	Martin Gajewski
Journal	Developmental Biology
Year	2006
Vol	293
Start Page	242

Evidence for Interaction	Injection of dlcMOs resulted in a dramatic decrease in her1 expression levels throughout the PSM of 10 somite embryos.
Target Gene	her1
Upstream Gene	dlc
Interaction Type	enhance
Altered model	MASO
Time of Interaction in evidence	14
Location of Interaction in evidence	somite
Evidence for Direct	3
Binding Site Sequence
Location of Site
Last Author
Journal	Developmental Biology
Year	2005
Vol	280
Start Page	133

Evidence for Interaction	overexpression of gadd45 genes affects somite segmentation. Expression of segmentation genes (mesp-a, her1, and MyoD) was severely reduced in the injected side ,whereas ntl expression was not changed.
Target Gene	her1
Upstream Gene	gadd45b
Interaction Type	repress
Altered model	overexpression
Time of Interaction in evidence	14
Location of Interaction in evidence	somite
Evidence for Direct	2
Binding Site Sequence
Location of Site
Last Author	Igor B. Dawid
Journal	PNAS
Year	2004
Vol	102
Start Page	361

Evidence for Interaction	Injection of her7MOs had caused widespread, high-level her1 expression throughout the PSM of 10 somite embryos.
Target Gene	her1
Upstream Gene	her7
Interaction Type	repress
Altered model	MASO
Time of Interaction in evidence	14
Location of Interaction in evidence	somite
Evidence for Direct	3
Binding Site Sequence
Location of Site
Last Author
Journal	Developmental Biology
Year	2005
Vol	280
Start Page	133

Evidence for Interaction	entire margin except for a dorsal gap in wild type, but is not expressed in MZoep mutants.
Target Gene	her1
Upstream Gene	oep
Interaction Type	enhance
Altered model	mutant embryos
Time of Interaction in evidence	5.25
Location of Interaction in evidence	margin
Evidence for Direct	1
Binding Site Sequence
Location of Site
Last Author	Schier, A. F.
Journal	Dev Biol
Year	2007
Vol	304
Start Page	525