Gene Expression Literature Summary

• Symbol: Sema3d
• Name: sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D
• ID: MGI:1860118

40 matching records from 40 references.

Summary by Age and Assay: Numbers in the table indicate the number of results matching the search criteria.

Age	E8.5	E9.5	E10.5	E11.5	E12.5	E13	E13.5	E14	E14.5	E15	E15.5	E16.5	E17	E17.5	E18.5	E	P
Immunohistochemistry (section)									1
In situ RNA (section)	1	1	2	5	3		7	1	9	1	7	1	1	1	1		6
In situ RNA (whole mount)	1	1		1			1
In situ reporter (knock in)		4	4	2	1		1		1		1
RT-PCR		1		3	3	1	1		1		1		1	1	1		5
cDNA clones																1

Summary by Gene and Reference: Number indicates the number of results matching the search criteria recorded for each reference.
* Indicates detailed expression data entries available

Sema3d  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D   (Synonyms: 4631426B19Rik)
Results	Reference
1	J:240790 Aghajanian H, Cho YK, Manderfield LJ, Herling MR, Gupta M, Ho VC, Li L, Degenhardt K, Aharonov A, Tzahor E, Epstein JA, Coronary vasculature patterning requires a novel endothelial ErbB2 holoreceptor. Nat Commun. 2016 Jun 30;7:12038
2	J:174459 Boyle MP, Bernard A, Thompson CL, Ng L, Boe A, Mortrud M, Hawrylycz MJ, Jones AR, Hevner RF, Lein ES, Cell-type-specific consequences of Reelin deficiency in the mouse neocortex, hippocampus, and amygdala. J Comp Neurol. 2011 Aug 1;519(11):2061-89
4	J:103829 Chen B, Schaevitz LR, McConnell SK, Fezl regulates the differentiation and axon targeting of layer 5 subcortical projection neurons in cerebral cortex. Proc Natl Acad Sci U S A. 2005 Nov 22;102(47):17184-9
4	J:124081 Chung L, Yang TL, Huang HR, Hsu SM, Cheng HJ, Huang PH, Semaphorin signaling facilitates cleft formation in the developing salivary gland. Development. 2007 Aug;134(16):2935-45
1	J:226819 Coate TM, Spita NA, Zhang KD, Isgrig KT, Kelley MW, Neuropilin-2/Semaphorin-3F-mediated repulsion promotes inner hair cell innervation by spiral ganglion neurons. Elife. 2015;4
1*	J:100439 Cohen S, Funkelstein L, Livet J, Rougon G, Henderson CE, Castellani V, Mann F, A semaphorin code defines subpopulations of spinal motor neurons during mouse development. Eur J Neurosci. 2005 Apr;21(7):1767-76
1	J:282348 Dasgupta K, Chung JU, Asam K, Jeong J, Molecular patterning of the embryonic cranial mesenchyme revealed by genome-wide transcriptional profiling. Dev Biol. 2019 Nov 15;455(2):434-448
3	J:198676 Degenhardt K, Singh MK, Aghajanian H, Massera D, Wang Q, Li J, Li L, Choi C, Yzaguirre AD, Francey LJ, Gallant E, Krantz ID, Gruber PJ, Epstein JA, Semaphorin 3d signaling defects are associated with anomalous pulmonary venous connections. Nat Med. 2013 Jun;19(6):760-5
1*	J:153498 Diez-Roux G, Banfi S, Sultan M, Geffers L, Anand S, Rozado D, Magen A, Canidio E, Pagani M, Peluso I, Lin-Marq N, Koch M, Bilio M, Cantiello I, Verde R, De Masi C, Bianchi SA, Cicchini J, Perroud E, Mehmeti S, Dagand E, Schrinner S, Nurnberger A, SchmidtK, Metz K, Zwingmann C, Brieske N, Springer C, Hernandez AM, Herzog S, Grabbe F, Sieverding C, Fischer B, Schrader K, Brockmeyer M, Dettmer S, Helbig C, Alunni V, Battaini MA, Mura C, Henrichsen CN, Garcia-Lopez R, Echevarria D, Puelles E, et al., A high-resolution anatomical atlas of the transcriptome in the mouse embryo. PLoS Biol. 2011;9(1):e1000582
2*	J:255607 Fu X, Xu J, Chaturvedi P, Liu H, Jiang R, Lan Y, Identification of Osr2 Transcriptional Target Genes in Palate Development. J Dent Res. 2017 Nov;96(12):1451-1458
4*	J:230339 Jiang Q, Arnold S, Heanue T, Kilambi KP, Doan B, Kapoor A, Ling AY, Sosa MX, Guy M, Jiang Q, Burzynski G, West K, Bessling S, Griseri P, Amiel J, Fernandez RM, Verheij JB, Hofstra RM, Borrego S, Lyonnet S, Ceccherini I, Gray JJ, Pachnis V, McCallion AS, Chakravarti A, Functional loss of semaphorin 3C and/or semaphorin 3D and their epistatic interaction with ret are critical to Hirschsprung disease liability. Am J Hum Genet. 2015 Apr 2;96(4):581-96
1	J:327273 Jidigam VK, Sawant OB, Fuller RD, Wilcots K, Singh R, Lang RA, Rao S, Neuronal Bmal1 regulates retinal angiogenesis and neovascularization in mice. Commun Biol. 2022 Aug 6;5(1):792
1	J:205955 Katayama K, Imai F, Suto F, Yoshida Y, Deletion of Sema3a or plexinA1/plexinA3 causes defects in sensory afferent projections of statoacoustic ganglion neurons. PLoS One. 2013;8(8):e72512
10	J:183083 Katz TC, Singh MK, Degenhardt K, Rivera-Feliciano J, Johnson RL, Epstein JA, Tabin CJ, Distinct compartments of the proepicardial organ give rise to coronary vascular endothelial cells. Dev Cell. 2012 Mar 13;22(3):639-50
1*	J:182578 Kay JN, Chu MW, Sanes JR, MEGF10 and MEGF11 mediate homotypic interactions required for mosaic spacing of retinal neurons. Nature. 2012 Mar 22;483(7390):465-9
1	J:153883 Kolk SM, Gunput RA, Tran TS, van den Heuvel DM, Prasad AA, Hellemons AJ, Adolfs Y, Ginty DD, Kolodkin AL, Burbach JP, Smidt MP, Pasterkamp RJ, Semaphorin 3F is a bifunctional guidance cue for dopaminergic axons and controls their fasciculation, channeling, rostral growth, and intracortical targeting. J Neurosci. 2009 Oct 7;29(40):12542-57
1	J:188362 Kuwajima T, Yoshida Y, Takegahara N, Petros TJ, Kumanogoh A, Jessell TM, Sakurai T, Mason C, Optic chiasm presentation of Semaphorin6D in the context of Plexin-A1 and Nr-CAM promotes retinal axon midline crossing. Neuron. 2012 May 24;74(4):676-90
2	J:255020 Lee H, Kim M, Kim N, Macfarlan T, Pfaff SL, Mastick GS, Song MR, Slit and Semaphorin signaling governed by Islet transcription factors positions motor neuron somata within the neural tube. Exp Neurol. 2015 Jul;269:17-27
2	J:264111 Liu CF, Angelozzi M, Haseeb A, Lefebvre V, SOX9 is dispensable for the initiation of epigenetic remodeling and the activation of marker genes at the onset of chondrogenesis. Development. 2018 Jul 18;145(14):dev164459
1*	J:310166 Lu WC, Zhou YX, Qiao P, Zheng J, Wu Q, Shen Q, The protocadherin alpha cluster is required for axon extension and myelination in the developing central nervous system. Neural Regen Res. 2018 Mar;13(3):427-433
1	J:330969 Martins LF, Brambilla I, Motta A, de Pretis S, Bhat GP, Badaloni A, Malpighi C, Amin ND, Imai F, Almeida RD, Yoshida Y, Pfaff SL, Bonanomi D, Motor neurons use push-pull signals to direct vascular remodeling critical for their connectivity. Neuron. 2022 Oct 7;
2	J:192712 Meadows SM, Fletcher PJ, Moran C, Xu K, Neufeld G, Chauvet S, Mann F, Krieg PA, Cleaver O, Integration of repulsive guidance cues generates avascular zones that shape mammalian blood vessels. Circ Res. 2012 Jan 6;110(1):34-46
4*	J:257654 Memic F, Knoflach V, Morarach K, Sadler R, Laranjeira C, Hjerling-Leffler J, Sundstrom E, Pachnis V, Marklund U, Transcription and Signaling Regulators in Developing Neuronal Subtypes of Mouse and Human Enteric Nervous System. Gastroenterology. 2018 Feb;154(3):624-636
2*	J:317548 Nishida S, Yoshizaki H, Yasui Y, Kuwahara T, Kiyokawa E, Kohno M, Collagen VI suppresses fibronectin-induced enteric neural crest cell migration by downregulation of focal adhesion proteins. Biochem Biophys Res Commun. 2018 Jan 1;495(1):1461-1467
2	J:225736 Payne S, Burney MJ, McCue K, Popal N, Davidson SM, Anderson RH, Scambler PJ, A critical role for the chromatin remodeller CHD7 in anterior mesoderm during cardiovascular development. Dev Biol. 2015 Sep 1;405(1):82-95
1	J:345835 Qiu C, Martin BK, Welsh IC, Daza RM, Le TM, Huang X, Nichols EK, Taylor ML, Fulton O, O'Day DR, Gomes AR, Ilcisin S, Srivatsan S, Deng X, Disteche CM, Noble WS, Hamazaki N, Moens CB, Kimelman D, Cao J, Schier AF, Spielmann M, Murray SA, Trapnell C, Shendure J, A single-cell time-lapse of mouse prenatal development from gastrula to birth. Nature. 2024 Feb;626(8001):1084-1093
2	J:307867 Quijada P, Trembley MA, Misra A, Myers JA, Baker CD, Perez-Hernandez M, Myers JR, Dirkx RA Jr, Cohen ED, Delmar M, Ashton JM, Small EM, Coordination of endothelial cell positioning and fate specification by the epicardium. Nat Commun. 2021 Jul 6;12(1):4155
1	J:154739 Quina LA, Wang S, Ng L, Turner EE, Brn3a and Nurr1 mediate a gene regulatory pathway for habenula development. J Neurosci. 2009 Nov 11;29(45):14309-22
1*	J:277791 Sar Shalom H, Goldner R, Golan-Vaishenker Y, Yaron A, Balance between BDNF and Semaphorins gates the innervation of the mammary gland. Elife. 2019 Jan 10;8:e41162
1	J:270128 Schulz Y, Wehner P, Opitz L, Salinas-Riester G, Bongers EM, van Ravenswaaij-Arts CM, Wincent J, Schoumans J, Kohlhase J, Borchers A, Pauli S, CHD7, the gene mutated in CHARGE syndrome, regulates genes involved in neural crest cell guidance. Hum Genet. 2014 Aug;133(8):997-1009
1*	J:330633 Shao A, Gearhart MD, Chan SC, Miao Z, Susztak K, Igarashi P, Multiomics analysis reveals that hepatocyte nuclear factor 1beta regulates axon guidance genes in the developing mouse kidney. Sci Rep. 2022 Oct 20;12(1):17586
1*	J:280399 Singh A, Mia MM, Cibi DM, Arya AK, Bhadada SK, Singh MK, Deficiency in the secreted protein Semaphorin3d causes abnormal parathyroid development in mice. J Biol Chem. 2019 May 24;294(21):8336-8347
1	J:235463 Singh A, Ramesh S, Cibi DM, Yun LS, Li J, Li L, Manderfield LJ, Olson EN, Epstein JA, Singh MK, Hippo Signaling Mediators Yap and Taz Are Required in the Epicardium for Coronary Vasculature Development. Cell Rep. 2016 May 17;15(7):1384-93
5*	J:136315 Takahashi K, Ishida M, Hirokawa K, Takahashi H, Expression of the semaphorins Sema 3D and Sema 3F in the developing parathyroid and thymus. Dev Dyn. 2008 Jun;237(6):1699-708
5*	J:215487 Thompson CL, Ng L, Menon V, Martinez S, Lee CK, Glattfelder K, Sunkin SM, Henry A, Lau C, Dang C, Garcia-Lopez R, Martinez-Ferre A, Pombero A, Rubenstein JL, Wakeman WB, Hohmann J, Dee N, Sodt AJ, Young R, Smith K, Nguyen TN, Kidney J, Kuan L, Jeromin A,Kaykas A, Miller J, Page D, Orta G, Bernard A, Riley Z, Smith S, Wohnoutka P, Hawrylycz MJ, Puelles L, Jones AR, A high-resolution spatiotemporal atlas of gene expression of the developing mouse brain. Neuron. 2014 Jul 16;83(2):309-23
5	J:220957 Tian X, Hu T, Zhang H, He L, Huang X, Liu Q, Yu W, He L, Yang Z, Zhang Z, Zhong TP, Yang X, Yang Z, Yan Y, Baldini A, Sun Y, Lu J, Schwartz RJ, Evans SM, Gittenberger-de Groot AC, Red-Horse K, Zhou B, Subepicardial endothelial cells invade the embryonic ventricle wall to form coronary arteries. Cell Res. 2013 Sep;23(9):1075-90
1	J:326542 van de Haar LL, Riga D, Boer JE, Garritsen O, Adolfs Y, Sieburgh TE, van Dijk RE, Watanabe K, van Kronenburg NCH, Broekhoven MH, Posthuma D, Meye FJ, Basak O, Pasterkamp RJ, Molecular signatures and cellular diversity during mouse habenula development. Cell Rep. 2022 Jul 5;40(1):111029
1*	J:307862 Wilkerson BA, Zebroski HL, Finkbeiner CR, Chitsazan AD, Beach KE, Sen N, Zhang RC, Bermingham-McDonogh O, Novel cell types and developmental lineages revealed by single-cell RNA-seq analysis of the mouse crista ampullaris. Elife. 2021 May 18;10:e60108
4*	J:138310 Xu C, Fan CM, Expression of Robo/Slit and Semaphorin/Plexin/Neuropilin family members in the developing hypothalamic paraventricular and supraoptic nuclei. Gene Expr Patterns. 2008 Sep;8(7-8):502-7
1	J:144660 Yoshida Y, Han B, Mendelsohn M, Jessell TM, PlexinA1 signaling directs the segregation of proprioceptive sensory axons in the developing spinal cord. Neuron. 2006 Dec 7;52(5):775-88